Structures, functions, and mechanisms of filament forming enzymes: a renaissance of enzyme filamentation

Abstract

Filament formation by non-cytoskeletal enzymes has been known for decades, yet only relatively recently has its wide-spread role in enzyme regulation and biology come to be appreciated. This comprehensive review summarizes what is known for each enzyme confirmed to form filamentous structures in vitro , and for the many that are known only to form large self-assemblies within cells. For some enzymes, studies describing both the in vitro filamentous structures and cellular self-assembly formation are also known and described. Special attention is paid to the detailed structures of each type of enzyme filament, as well as the roles the structures play in enzyme regulation and in biology. Where it is known or hypothesized, the advantages conferred by enzyme filamentation are reviewed. Finally, the similarities, differences, and comparison to the SgrAI endonuclease system are also highlighted.

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References 343

1. 1.

   Abu-Elheiga L, Jayakumar A, Baldini A, Chirala SS, Wakil SJ. Human acetyl-CoA carboxylase: characterization, molecular cloning, and evidence for two isoforms. Proc Natl Acad Sci U S A. 1995;92(9):4011-4015.

   Not in our library10.1073/pnas.92.9.4011

2. 2.

   Abu-Elheiga L, Almarza-Ortega DB, Baldini A, Wakil SJ. Human acetyl-CoA carboxylase 2. Molecular cloning, characterization, chromosomal mapping, and evidence for two isoforms. J Biol Chem. 1997;272(16):10669-10677.

   Not in our library10.1074/jbc.272.16.10669

3. 3.

   Abu-Elheiga L, Matzuk MM, Abo-Hashema KA, Wakil SJ. Continuous fatty acid oxidation and reduced fat storage in mice lacking acetyl-CoA carboxylase 2. Science. 2001;291(5513):2613-2616.

   Not in our library10.1126/science.1056843

4. 4.

   Abu-Elheiga L, Oh W, Kordari P, Wakil SJ. Acetyl-CoA carboxylase 2 mutant mice are protected against obesity and diabetes induced by high-fat/high-carbohydrate diets. Proc Natl Acad Sci U S A. 2003;100(18):10207-10212.

   Not in our library10.1073/pnas.1733877100

5. 5.

   Alberti S, Halfmann R, King O, Kapila A, Lindquist S. A systematic survey identifies prions and illuminates sequence features of prionogenic proteins. Cell. 2009;137(1):146-158.

   Not in our library10.1016/j.cell.2009.02.044

6. 6.

   Ali MM, Bagratuni T, Davenport EL, Nowak PR, Silva-Santisteban MC, Hardcastle A, McAndrews C, Rowlands MG, Morgan GJ, Aherne W, Collins I, Davies FE, Pearl LH. Structure of the Ire1 autophosphorylation complex and implications for the unfolded protein response. EMBO J. 2011;30(5):894-905.

   Not in our library10.1038/emboj.2011.18

7. 7.

   An S, Kumar R, Sheets ED, Benkovic SJ. Reversible compartmentalization of de novo purine biosynthetic complexes in living cells. Science. 2008;320(5872):103-106.

   Not in our library10.1126/science.1152241

8. 8.

   Ando N, Li H, Brignole EJ, Thompson S, McLaughlin MI, Page JE, Asturias FJ, Stubbe J, Drennan CL. Allosteric Inhibition of human ribonucleotide reductase by dATP entails the stabilization of a hexamer. Biochemistry. 2016;55(2):373-381.

   Not in our library10.1021/acs.biochem.5b01207

9. 9.

   Angelucci F, Saccoccia F, Ardini M, Boumis G, Brunori M, Di Leandro L, Ippoliti R, Miele AE, Natoli G, Scotti S, Bellelli A. Switching between the alternative structures and functions of a 2-Cys peroxiredoxin, by site-directed mutagenesis. J Mol Biol. 2013;425(22):4556-4568.

   Not in our library10.1016/j.jmb.2013.09.002

10. 10.

    Angermuller S, Bruder G, Volkl A, Wesch H, Fahimi HD. Localization of xanthine oxidase in crystalline cores of peroxisomes. A cytochemical and biochemical study. Eur J Cell Biol. 1987;45(1):137-144.

    Not in our library

11. 11.

    Anthony SA, Burrell AL, Johnson MC, Duong-Ly KC, Kuo YM, Simonet JC, Michener P, Andrews A, Kollman JM, Peterson JR (2017) Reconstituted IMPDH polymers accommodate both catalytically active and inactive conformations. Mol Biol Cell

    Not in our library10.1091/mbc.e17-04-0263

12. 12.

    Antonini E, Brunori M, Bruzzesi R, Chiancone E, Massey V. Association-dissociation phenomena of D-amino acid oxidase. J Biol Chem. 1966;241(10):2358-2366.

    Not in our library

13. 13.

    Aragon T, van Anken E, Pincus D, Serafimova IM, Korennykh AV, Rubio CA, Walter P. Messenger RNA targeting to endoplasmic reticulum stress signalling sites. Nature. 2009;457(7230):736-740.

    Not in our library10.1038/nature07641

14. 14.

    Ashcraft BA, Fillers WS, Augustine SL, Clarke SD. Polymer-protomer transition of acetyl-CoA carboxylase occurs in vivo and varies with nutritional conditions. J Biol Chem. 1980;255(21):10033-10035.

    Not in our library

15. 15.

    Atkin JD, Farg MA, Walker AK, McLean C, Tomas D, Horne MK. Endoplasmic reticulum stress and induction of the unfolded protein response in human sporadic amyotrophic lateral sclerosis. Neurobiol Dis. 2008;30(3):400-407.

    Not in our library10.1016/j.nbd.2008.02.009

16. 16.

    Aughey GN, Grice SJ, Shen QJ, Xu Y, Chang CC, Azzam G, Wang PY, Freeman-Mills L, Pai LM, Sung LY, Yan J, Liu JL. Nucleotide synthesis is regulated by cytoophidium formation during neurodevelopment and adaptive metabolism. Biol Open. 2014;3(11):1045-1056.

    Not in our library10.1242/bio.201410165

17. 17.
    Alterations in stress granule dynamics driven by TDP-43 and FUS: a link to pathological inclusions in ALS? · 2015

    No notice
18. 18.

    Aylett CH, Lowe J, Amos LA. New insights into the mechanisms of cytomotive actin and tubulin filaments. Int Rev Cell Mol Biol. 2011;292:1-71.

    Not in our library10.1016/b978-0-12-386033-0.00001-3

19. 19.

    Bailey J, Bell ET, Bell JE. Regulation of bovine glutamate dehydrogenase. The effects of pH and ADP. J Biol Chem. 1982;257(10):5579-5583.

    Not in our library

20. 20.

    Barahona CJ, Basantes LE, Tompkins KJ, Heitman DM, Chukwu BI, Sanchez J, Sanchez JL, Ghadirian N, Park CK, Horton NC. The need for speed: run-on oligomer filament formation provides maximum speed with maximum sequestration of activity. J Virol. 2019;93(5):1-19.

    Not in our library10.1128/jvi.01647-18

21. 21.

    Barry RM, Gitai Z. Self-assembling enzymes and the origins of the cytoskeleton. Curr Opin Microbiol. 2011;14(6):704-711.

    Not in our library10.1016/j.mib.2011.09.015

22. 22.
    Large-scale filament formation inhibits the activity of CTP synthetase · 2014

    No notice
23. 23.

    Beaty NB, Lane MD. Kinetics of activation of acetyl-CoA carboxylase by citrate. Relationship to the rate of polymerization of the enzyme. J Biol Chem. 1983;258(21):13043-13050.

    Not in our library

24. 24.

    Bernstein BW, Bamburg JR. ADF/cofilin: a functional node in cell biology. Trends Cell Biol. 2010;20(4):187-195.

    Not in our library10.1016/j.tcb.2010.01.001

25. 25.

    Bernstein BW, Chen H, Boyle JA, Bamburg JR. Formation of actin-ADF/cofilin rods transiently retards decline of mitochondrial potential and ATP in stressed neurons. Am J Phys Cell Phys. 2006;291(5):C828-C839.

    Not in our library10.1152/ajpcell.00066.2006

26. 26.

    Bershadsky AD, Vasil’ev IUM. Cytoskeleton. 1988.

    Not in our library

27. 27.

    Bilcock DT, Daniels LE, Bath AJ, Halford SE. Reactions of type II restriction endonucleases with 8-base pair recognition sites. J Biol Chem. 1999;274(51):36379-36386.

    Not in our library10.1074/jbc.274.51.36379

28. 28.

    Bitinaite J, Schildkraut I. Self-generated DNA termini relax the specificity of SgrAI restriction endonuclease. Proc Natl Acad Sci U S A. 2002;99(3):1164-1169.

    Not in our library10.1073/pnas.022346799

29. 29.

    Bleichert Franziska, Botchan Michael R., Berger James M. Mechanisms for initiating cellular DNA replication. Science. 2017;355(6327):eaah6317.

    Not in our library10.1126/science.aah6317

30. 30.

    Breinig S, Kervinen J, Stith L, Wasson AS, Fairman R, Wlodawer A, Zdanov A, Jaffe EK. Control of tetrapyrrole biosynthesis by alternate quaternary forms of porphobilinogen synthase. Nat Struct Biol. 2003;10(9):757-763.

    Not in our library10.1038/nsb963

31. 31.

    Brownsey RW, Boone AN, Elliott JE, Kulpa JE, Lee WM. Regulation of acetyl-CoA carboxylase. Biochem Soc Trans. 2006;34(Pt 2):223-227.

    Not in our library10.1042/bst20060223

32. 32.

    Bruser A, Kirchberger J, Kloos M, Strater N, Schoneberg T. Functional linkage of adenine nucleotide binding sites in mammalian muscle 6-phosphofructokinase. J Biol Chem. 2012;287(21):17546-17553.

    Not in our library10.1074/jbc.m112.347153

33. 33.

    Cabeen MT, Jacobs-Wagner C. A metabolic assembly line in bacteria. Nat Cell Biol. 2010;12(8):731-733.

    Not in our library10.1038/ncb0810-731

34. 34.

    Calfon M, Zeng H, Urano F, Till JH, Hubbard SR, Harding HP, Clark SG, Ron D. IRE1 couples endoplasmic reticulum load to secretory capacity by processing the XBP-1 mRNA. Nature. 2002;415(6867):92-96.

    Not in our library10.1038/415092a

35. 35.

    Calise SJ, Carcamo WC, Krueger C, Yin JD, Purich DL, Chan EK. Glutamine deprivation initiates reversible assembly of mammalian rods and rings. Cell Mol Life Sci. 2014;71(15):2963-2973.

    Not in our library10.1007/s00018-014-1567-6

36. 36.

    Campbell SG, Hoyle NP, Ashe MP. Dynamic cycling of eIF2 through a large eIF2B-containing cytoplasmic body: implications for translation control. J Cell Biol. 2005;170(6):925-934.

    Not in our library10.1083/jcb.200503162

37. 37.
    Induction of Cytoplasmic Rods and Rings Structures by Inhibition of the CTP and GTP Synthetic Pathway in Mammalian Cells · 2011

    No notice
38. 38.

    Carcamo WC, Calise SJ, von Muhlen CA, Satoh M, Chan EK. Molecular cell biology and immunobiology of mammalian rod/ring structures. Int Rev Cell Mol Biol. 2014;308:35-74.

    Not in our library10.1016/b978-0-12-800097-7.00002-6

39. 39.

    Carr SF, Papp E, Wu JC, Natsumeda Y. Characterization of human type I and type II IMP dehydrogenases. J Biol Chem. 1993;268(36):27286-27290.

    Not in our library

40. 40.

    Cassman M, Schachman HK. Sedimentation equilibrium studies on glutamic dehydrogenase. Biochemistry. 1971;10(6):1015-1024.

    Not in our library10.1021/bi00782a013

41. 41.

    Chan KY, Gumbart J, McGreevy R, Watermeyer JM, Sewell BT, Schulten K. Symmetry-restrained flexible fitting for symmetric EM maps. Structure. 2011;19(9):1211-1218.

    Not in our library10.1016/j.str.2011.07.017

42. 42.

    Chang YF, Martin SS, Baldwin EP, Carman GM. Phosphorylation of human CTP synthetase 1 by protein kinase C: identification of Ser(462) and Thr(455) as major sites of phosphorylation. J Biol Chem. 2007;282(24):17613-17622.

    Not in our library10.1074/jbc.m702799200

43. 43.

    Chang CC, Lin WC, Pai LM, Lee HS, Wu SC, Ding ST, Liu JL, Sung LY. Cytoophidium assembly reflects upregulation of IMPDH activity. J Cell Sci. 2015;128(19):3550-3555.

    Not in our library10.1242/jcs.175265

44. 44.

    Chang CC, Keppeke GD, Sung LY, Liu JL. Interfilament interaction between IMPDH and CTPS cytoophidia. FEBS J. 2018;285(20):3753-3768.

    Not in our library10.1111/febs.14624

45. 45.

    Chaudhry FA, Reimer RJ, Edwards RH. The glutamine commute: take the N line and transfer to the A. J Cell Biol. 2002;157(3):349-355.

    Not in our library10.1083/jcb.200201070

46. 46.

    Chen Y, Brandizzi F. IRE1: ER stress sensor and cell fate executor. Trends Cell Biol. 2013;23(11):547-555.

    Not in our library10.1016/j.tcb.2013.06.005

47. 47.

    Chen L, Pankiewicz KW. Recent development of IMP dehydrogenase inhibitors for the treatment of cancer. Curr Opin Drug Discov Devel. 2007;10(4):403-412.

    Not in our library

48. 48.

    Chen Y, Zhu J, Lum PY, Yang X, Pinto S, MacNeil DJ, Zhang C, Lamb J, Edwards S, Sieberts SK, Leonardson A, Castellini LW, Wang S, Champy MF, Zhang B, Emilsson V, Doss S, Ghazalpour A, Horvath S, Drake TA, Lusis AJ, Schadt EE. Variations in DNA elucidate molecular networks that cause disease. Nature. 2008;452(7186):429-435.

    Not in our library10.1038/nature06757

49. 49.

    Chen Z, Yang H, Pavletich NP. Mechanism of homologous recombination from the RecA-ssDNA/dsDNA structures. Nature. 2008;453(7194):489-484.

    Not in our library10.1038/nature06971

50. 50.

    Chen K, Zhang J, Tastan OY, Deussen ZA, Siswick MY, Liu JL. Glutamine analogs promote cytoophidium assembly in human and Drosophila cells. J Genet Genomics. 2011;38(9):391-402.

    Not in our library10.1016/j.jgg.2011.08.004

51. 51.

    Chiti F, Dobson CM. Protein misfolding, functional amyloid, and human disease. Annu Rev Biochem. 2006;75:333-366.

    Not in our library10.1146/annurev.biochem.75.101304.123901

52. 52.

    Cho YS, Challa S, Moquin D, Genga R, Ray TD, Guildford M, Chan FK. Phosphorylation-driven assembly of the RIP1-RIP3 complex regulates programmed necrosis and virus-induced inflammation. Cell. 2009;137(6):1112-1123.

    Not in our library10.1016/j.cell.2009.05.037

53. 53.

    Choi MG, Park TS, Carman GM. Phosphorylation of Saccharomyces cerevisiae CTP synthetase at Ser424 by protein kinases A and C regulates phosphatidylcholine synthesis by the CDP-choline pathway. J Biol Chem. 2003;278(26):23610-23616.

    Not in our library10.1074/jbc.m303337200

54. 54.

    Cimini A, Gentile R, Angelucci F, Benedetti E, Pitari G, Giordano A, Ippoliti R. Neuroprotective effects of PrxI over-expression in an in vitro human Alzheimer's disease model. J Cell Biochem. 2013;114(3):708-715.

    Not in our library10.1002/jcb.24412

55. 55.

    Cox JS, Shamu CE, Walter P. Transcriptional induction of genes encoding endoplasmic reticulum resident proteins requires a transmembrane protein kinase. Cell. 1993;73(6):1197-1206.

    Not in our library10.1016/0092-8674(93)90648-a

56. 56.

    Credle JJ, Finer-Moore JS, Papa FR, Stroud RM, Walter P. On the mechanism of sensing unfolded protein in the endoplasmic reticulum. Proc Natl Acad Sci U S A. 2005;102(52):18773-18784.

    Not in our library10.1073/pnas.0509487102

57. 57.

    Cutler SR, Somerville CR. Imaging plant cell death: GFP-Nit1 aggregation marks an early step of wound and herbicide induced cell death. BMC Plant Biol. 2005;5:4.

    Not in our library10.1186/1471-2229-5-4

58. 58.

    Daniels LE, Wood KM, Scott DJ, Halford SE. Subunit assembly for DNA cleavage by restriction endonuclease SgrAI. J Mol Biol. 2003;327(3):579-591.

    Not in our library10.1016/s0022-2836(03)00143-8

59. 59.

    DeBerardinis RJ, Cheng T. Q's next: the diverse functions of glutamine in metabolism, cell biology and cancer. Oncogene. 2010;29(3):313-324.

    Not in our library10.1038/onc.2009.358

60. 60.

    Dechant R, Binda M, Lee SS, Pelet S, Winderickx J, Peter M. Cytosolic pH is a second messenger for glucose and regulates the PKA pathway through V-ATPase. EMBO J. 2010;29(15):2515-2526.

    Not in our library10.1038/emboj.2010.138

61. 61.

    DeLaBarre B, Gross S, Fang C, Gao Y, Jha A, Jiang F, Song JJ, Wei W, Hurov JB. Full-length human glutaminase in complex with an allosteric inhibitor. Biochemistry. 2011;50(50):10764-10770.

    Not in our library10.1021/bi201613d

62. 62.

    Deng Y, Gam J, French JB, Zhao H, An S, Benkovic SJ. Mapping protein-protein proximity in the purinosome. J Biol Chem. 2012;287(43):36201-36207.

    Not in our library10.1074/jbc.m112.407056

63. 63.

    Dent KC, Weber BW, Benedik MJ, Sewell BT. The cyanide hydratase from Neurospora crassa forms a helix which has a dimeric repeat. Appl Microbiol Biotechnol. 2009;82(2):271-278.

    Not in our library10.1007/s00253-008-1735-4

64. 64.

    Dever TE, Yang W, Astrom S, Bystrom AS, Hinnebusch AG. Modulation of tRNA(iMet), eIF-2, and eIF-2B expression shows that GCN4 translation is inversely coupled to the level of eIF-2.GTP.Met-tRNA(iMet) ternary complexes. Mol Cell Biol. 1995;15(11):6351-6363.

    Not in our library10.1128/mcb.15.11.6351

65. 65.

    Diebolder CA, Halff EF, Koster AJ, Huizinga EG, Koning RI. Cryoelectron tomography of the NAIP5/NLRC4 inflammasome: implications for NLR activation. Structure. 2015;23(12):2349-2357.

    Not in our library10.1016/j.str.2015.10.001

66. 66.

    Dieter H, Koberstein R, Sund H. Studies of glutamate dehydrogenase. The interaction of ADP, GTP, and NADPH in complexes with glutamate dehydrogenase. Eur J Biochem. 1981;115(1):217-226.

    Not in our library

67. 67.

    Duderstadt KE, Chuang K, Berger JM. DNA stretching by bacterial initiators promotes replication origin opening. Nature. 2011;478(7368):209-213.

    Not in our library10.1038/nature10455

68. 68.

    Dunten PW, Little EJ, Gregory MT, Manohar VM, Dalton M, Hough D, Bitinaite J, Horton NC. The structure of SgrAI bound to DNA; recognition of an 8 base pair target. Nucleic Acids Res. 2008;36:5405-5416.

    Not in our library10.1093/nar/gkn510

69. 69.

    Eisenberg H, Reisler E. Angular dependence of scattered light, rotary frictional coefficients, and distribution of sizes of associated oligomers in solutions of bovine liver glutamate dehydrogenase. Biopolymers. 1971;10(12):2363-2376.

    Not in our library10.1002/bip.360101202

70. 70.

    Eisenberg D, Gill HS, Pfluegl GM, Rotstein SH. Structure-function relationships of glutamine synthetases. Biochim Biophys Acta. 2000;1477(1-2):122-145.

    Not in our library10.1016/s0167-4838(99)00270-8

71. 71.

    Endrizzi JA, Kim H, Anderson PM, Baldwin EP. Mechanisms of product feedback regulation and drug resistance in cytidine triphosphate synthetases from the structure of a CTP-inhibited complex. Biochemistry. 2005;44(41):13491-13499.

    Not in our library10.1021/bi051282o

72. 72.

    Erdmann N, Zhao J, Lopez AL, Herek S, Curthoys N, Hexum TD, Tsukamoto T, Ferraris D, Zheng J. Glutamate production by HIV-1 infected human macrophage is blocked by the inhibition of glutaminase. J Neurochem. 2007;102(2):539-549.

    Not in our library10.1111/j.1471-4159.2007.04594.x

73. 73.

    Erdmann N, Tian C, Huang Y, Zhao J, Herek S, Curthoys N, Zheng J. In vitro glutaminase regulation and mechanisms of glutamate generation in HIV-1-infected macrophage. J Neurochem. 2009;109(2):551-561.

    Not in our library10.1111/j.1471-4159.2009.05989.x

74. 74.

    Erzberger JP, Mott ML, Berger JM. Structural basis for ATP-dependent DnaA assembly and replication-origin remodeling. Nat Struct Mol Biol. 2006;13(8):676-683.

    Not in our library10.1038/nsmb1115

75. 75.

    Extance J, Crennell SJ, Eley K, Cripps R, Hough DW, Danson MJ. Structure of a bifunctional alcohol dehydrogenase involved in bioethanol generation in Geobacillus thermoglucosidasius. Acta Crystallogr D Biol Crystallogr. 2013;69(Pt 10):2104-2115.

    Not in our library10.1107/s0907444913020349

76. 76.

    Fahien LA, Macdonald MJ. The complex mechanism of glutamate dehydrogenase in insulin secretion. Diabetes. 2011;60(10):2450-2454.

    Not in our library10.2337/db10-1150

77. 77.

    Fahien LA, MacDonald MJ, Teller JK, Fibich B, Fahien CM. Kinetic advantages of hetero-enzyme complexes with glutamate dehydrogenase and the alpha-ketoglutarate dehydrogenase complex. J Biol Chem. 1989;264(21):12303-12312.

    Not in our library

78. 78.

    Fahien LA, Teller JK, Macdonald MJ, Fahien CM. Regulation of glutamate dehydrogenase by Mg2+ and magnification of leucine activation by Mg2 +. Mol Pharmacol. 1990;37(6):943-949.

    Not in our library

79. 79.

    Fernandes BCM, Mateo C, Kiziak C, Chmura A, Wacker J, van Rantwijk F, Stolz A, Sheldon RA. Nitrile hydratase activity of a recombinant nitrilase. Adv Synth Catal. 2006;348:2597-2603.

    Not in our library

80. 80.

    Ferrao R, Wu H. Helical assembly in the death domain (DD) superfamily. Curr Opin Struct Biol. 2012;22(2):241-247.

    Not in our library10.1016/j.sbi.2012.02.006

81. 81.

    Ferreira AP, Cassago A, Goncalves Kde A, Dias MM, Adamoski D, Ascencao CF, Honorato RV, de Oliveira JF, Ferreira IM, Fornezari C, Bettini J, Oliveira PS, Paes Leme AF, Portugal RV, Ambrosio AL, Dias SM. Active glutaminase C self-assembles into a supratetrameric oligomer that can be disrupted by an allosteric inhibitor. J Biol Chem. 2013;288(39):28009-28020.

    Not in our library10.1074/jbc.m113.501346

82. 82.

    Foe LG, Trujillo JL. Quaternary structure of pig liver phosphofructokinase. J Biol Chem. 1980;255(21):10537-10541.

    Not in our library

83. 83.

    Frey TG, Eisenberg D, Eiserling FA. Glutamine synthetase forms three- and seven-stranded helical cables. Proc Natl Acad Sci U S A. 1975;72(9):3402-3406.

    Not in our library10.1073/pnas.72.9.3402

84. 84.

    Frieden C. Glutamic dehydrogenase. I. The effect of coenzyme on the sedimentation velocity and kinetic behavior. J Biol Chem. 1959;234(4):809-814.

    Not in our library

85. 85.

    Frieden C. Glutamic dehydrogenase. II. The effect of various nucleotides on the association-dissociation and kinetic properties. J Biol Chem. 1959;234(4):815-820.

    Not in our library

86. 86.

    Frieden C. Glutamate Dehydrogenase. Vi. Survey of Purine Nucleotide and Other Effects on the Enzyme from Various Sources. J Biol Chem. 1965;240:2028-2035.

    Not in our library

87. 87.

    Garcia-Seisdedos H, Empereur-Mot C, Elad N, Levy ED. Proteins evolve on the edge of supramolecular self-assembly. Nature. 2017;548(7666):244-247.

    Not in our library10.1038/nature23320

88. 88.

    Gardner BM, Walter P. Unfolded proteins are Ire1-activating ligands that directly induce the unfolded protein response. Science. 2011;333(6051):1891-1894.

    Not in our library10.1126/science.1209126

89. 89.

    Ghosh R, Wang L, Wang ES, Perera BG, Igbaria A, Morita S, Prado K, Thamsen M, Caswell D, Macias H, Weiberth KF, Gliedt MJ, Alavi MV, Hari SB, Mitra AK, Bhhatarai B, Schurer SC, Snapp EL, Gould DB, German MS, Backes BJ, Maly DJ, Oakes SA, Papa FR. Allosteric inhibition of the IRE1alpha RNase preserves cell viability and function during endoplasmic reticulum stress. Cell. 2014;158(3):534-548.

    Not in our library10.1016/j.cell.2014.07.002

90. 90.

    Gilliland WD, Vietti DL, Schweppe NM, Guo F, Johnson TJ, Hawley RS. Hypoxia transiently sequesters mps1 and polo to collagenase-sensitive filaments in Drosophila prometaphase oocytes. PLoS One. 2009;4(10):e7544.

    Not in our library10.1371/journal.pone.0007544

91. 91.

    Glover CV. A filamentous form of Drosophila casein kinase II. J Biol Chem. 1986;261(30):14349-14354.

    Not in our library

92. 92.
    Structural basis of RIP2 activation and signaling · 2018

    Not checked
93. 93.

    Goodsell DS, Olson AJ. Structural symmetry and protein function. Annu Rev Biophys Biomol Struct. 2000;29:105-153.

    Not in our library10.1146/annurev.biophys.29.1.105

94. 94.

    Goto M, Omi R, Nakagawa N, Miyahara I, Hirotsu K. Crystal structures of CTP synthetase reveal ATP, UTP, and glutamine binding sites. Structure. 2004;12(8):1413-1423.

    Not in our library10.1016/j.str.2004.05.013

95. 95.

    Gourlay LJ, Bhella D, Kelly SM, Price NC, Lindsay JG. Structure-function analysis of recombinant substrate protein 22 kDa (SP-22). A mitochondrial 2-CYS peroxiredoxin organized as a decameric toroid. J Biol Chem. 2003;278(35):32631-32637.

    Not in our library10.1074/jbc.m303862200

96. 96.

    Grabowska A, Nowicki M, Kwinta J. Glutamate dehydrogenase of the germinating triticale seeds: gene expression, activity distribution and kinetic characteristics. Acta Physiol Plant. 2011;33(5):1981-1990.

    Not in our library

97. 97.

    Griffin MDW, Gerrard JA, Matthews JM. The relationship between oligomeric state and protein function. Protein Dimerization and Oligomerization in Biology. 2012;74-90.

    Not in our library

98. 98.

    Gunning BE. The fine structure of chloroplast stroma following aldehyde osmium-tetroxide fixation. J Cell Biol. 1965;24:79-93.

    Not in our library10.1083/jcb.24.1.79

99. 99.

    Gunter JH, Thomas EC, Lengefeld N, Kruger SJ, Worton L, Gardiner EM, Jones A, Barnett NL, Whitehead JP. Characterisation of inosine monophosphate dehydrogenase expression during retinal development: differences between variants and isoforms. Int J Biochem Cell Biol. 2008;40(9):1716-1728.

    Not in our library10.1016/j.biocel.2007.12.018

100. 100.

     Guri Y, Colombi M, Dazert E, Hindupur SK, Roszik J, Moes S, Jenoe P, Heim MH, Riezman I, Riezman H, Hall MN. mTORC2 promotes tumorigenesis via lipid synthesis. Cancer Cell. 2017;32(6):807-823.

     Not in our library10.1016/j.ccell.2017.11.011

101. 101.

     Gylfe E. Comparison of the effects of leucines, non-metabolizable leucine analogues and other insulin secretagogues on the activity of glutamate dehydrogenase. Acta Diabetol Lat. 1976;13(1-2):20-24.

     Not in our library10.1007/bf02591577

102. 102.

     Ha J, Daniel S, Broyles SS, Kim KH. Critical phosphorylation sites for acetyl-CoA carboxylase activity. J Biol Chem. 1994;269(35):22162-22168.

     Not in our library

103. 103.

     Hamberger A, Chiang GH, Sandoval E, Cotman CW. Glutamate as a CNS transmitter. II. Regulation of synthesis in the releasable pool. Brain Res. 1979;168(3):531-541.

     Not in our library10.1016/0006-8993(79)90307-x

104. 104.

     Han GS, Sreenivas A, Choi MG, Chang YF, Martin SS, Baldwin EP, Carman GM. Expression of Human CTP synthetase in Saccharomyces cerevisiae reveals phosphorylation by protein kinase A. J Biol Chem. 2005;280(46):38328-38336.

     Not in our library10.1074/jbc.m509622200

105. 105.

     Han D, Lerner AG, Vande Walle L, Upton JP, Xu W, Hagen A, Backes BJ, Oakes SA, Papa FR. IRE1alpha kinase activation modes control alternate endoribonuclease outputs to determine divergent cell fates. Cell. 2009;138(3):562-575.

     Not in our library10.1016/j.cell.2009.07.017

106. 106.

     Hanahan D, Weinberg RA. Hallmarks of cancer: the next generation. Cell. 2011;144(5):646-674.

     Not in our library10.1016/j.cell.2011.02.013

107. 107.

     Harper DB. Fungal degradation of aromatic nitriles. Enzymology of C-N cleavage by Fusarium solani. Biochem J. 1977;167(3):685-692.

     Not in our library10.1042/bj1670685

108. 108.

     Harper DB. Microbial metabolism of aromatic nitriles. Enzymology of C-N cleavage by Nocardia sp. (Rhodochrous group) N.C.I.B. 11216. Biochem J. 1977;165(2):309-319.

     Not in our library10.1042/bj1650309

109. 109.

     Harwood HJ. Acetyl-CoA carboxylase inhibition for the treatment of metabolic syndrome. Curr Opin Investig Drugs. 2004;5(3):283-289.

     Not in our library

110. 110.

     He S, Wang L, Miao L, Wang T, Du F, Zhao L, Wang X. Receptor interacting protein kinase-3 determines cellular necrotic response to TNF-alpha. Cell. 2009;137(6):1100-1111.

     Not in our library10.1016/j.cell.2009.05.021

111. 111.

     He YX, Gui L, Liu YZ, Du Y, Zhou Y, Li P, Zhou CZ. Crystal structure of Saccharomyces cerevisiae glutamine synthetase Gln1 suggests a nanotube-like supramolecular assembly. Proteins. 2009;76(1):249-254.

     Not in our library10.1002/prot.22403

112. 112.

     Hedstrom L. IMP dehydrogenase: structure, mechanism, and inhibition. Chem Rev. 2009;109(7):2903-2928.

     Not in our library10.1021/cr900021w

113. 113.

     Hindenburg AA, Taub RN, Grant S, Chang G, Baker MA. Effects of pyrimidine antagonists on sialic acid regeneration in HL-60 cells. Cancer Res. 1985;45(7):3048-3052.

     Not in our library

114. 114.

     Hingorani-Varma K, Bitinaite J. Kinetic analysis of the coordinated interaction of SgrAI restriction endonuclease with different DNA targets. J Biol Chem. 2003;278(41):40392-40399.

     Not in our library10.1074/jbc.m304603200

115. 115.

     Hofer A, Steverding D, Chabes A, Brun R, Thelander L. Trypanosoma brucei CTP synthetase: a target for the treatment of African sleeping sickness. Proc Natl Acad Sci U S A. 2001;98(11):6412-6416.

     Not in our library10.1073/pnas.111139498

116. 116.

     Hoffman EM, Schechter R, Miller KE. Fixative composition alters distributions of immunoreactivity for glutaminase and two markers of nociceptive neurons, Nav1.8 and TRPV1, in the rat dorsal root ganglion. J Histochem Cytochem. 2010;58(4):329-344.

     Not in our library10.1369/jhc.2009.954008

117. 117.

     Hollien J, Weissman JS. Decay of endoplasmic reticulum-localized mRNAs during the unfolded protein response. Science. 2006;313(5783):104-107.

     Not in our library10.1126/science.1129631

118. 118.

     Hollien J, Lin JH, Li H, Stevens N, Walter P, Weissman JS. Regulated Ire1-dependent decay of messenger RNAs in mammalian cells. J Cell Biol. 2009;186(3):323-331.

     Not in our library10.1083/jcb.200903014

119. 119.

     Huang CY, Frieden C. The mechanism of ligand-induced structural changes in glutamate dehydrogenase. Studies of the rate of depolymerization and isomerization effected by coenzymes and guanine nucleotides. J Biol Chem. 1972;247(11):3638-3646.

     Not in our library

120. 120.

     Hubner GM, Larsen JN, Guerra B, Niefind K, Vrecl M, Issinger OG. Evidence for aggregation of protein kinase CK2 in the cell: a novel strategy for studying CK2 holoenzyme interaction by BRET(2). Mol Cell Biochem. 2014;397(1-2):285-293.

     Not in our library10.1007/s11010-014-2196-y

121. 121.

     Hudson RC, Daniel RM. L-glutamate dehydrogenases: distribution, properties and mechanism. Comp Biochem Physiol B. 1993;106(4):767-792.

     Not in our library10.1016/0305-0491(93)90031-y

122. 122.

     Hunkeler M, Hagmann A, Stuttfeld E, Chami M, Guri Y, Stahlberg H, Maier T. Structural basis for regulation of human acetyl-CoA carboxylase. Nature. 2018;558(7710):470-474.

     Not in our library10.1038/s41586-018-0201-4

123. 123.

     Ibstedt S, Sideri TC, Grant CM, Tamas MJ. Global analysis of protein aggregation in yeast during physiological conditions and arsenite stress. Biol Open. 2014;3(10):913-923.

     Not in our library10.1242/bio.20148938

124. 124.

     Imagawa Y, Hosoda A, Sasaka S, Tsuru A, Kohno K. RNase domains determine the functional difference between IRE1alpha and IRE1beta. FEBS Lett. 2008;582(5):656-660.

     Not in our library10.1016/j.febslet.2008.01.038

125. 125.

     Ingerson-Mahar M, Briegel A, Werner JN, Jensen GJ, Gitai Z. The metabolic enzyme CTP synthase forms cytoskeletal filaments. Nat Cell Biol. 2010;12(8):739-746.

     Not in our library10.1038/ncb2087

126. 126.

     Ishiwata-Kimata Y, Yamamoto YH, Takizawa K, Kohno K, Kimata Y. F-actin and a type-II myosin are required for efficient clustering of the ER stress sensor Ire1. Cell Struct Funct. 2013;38(2):135-143.

     Not in our library10.1247/csf.12033

127. 127.

     Isom DG, Sridharan V, Baker R, Clement ST, Smalley DM, Dohlman HG. Protons as second messenger regulators of G protein signaling. Mol Cell. 2013;51(4):531-538.

     Not in our library10.1016/j.molcel.2013.07.012

128. 128.

     Iwawaki T, Hosoda A, Okuda T, Kamigori Y, Nomura-Furuwatari C, Kimata Y, Tsuru A, Kohno K. Translational control by the ER transmembrane kinase/ribonuclease IRE1 under ER stress. Nat Cell Biol. 2001;3(2):158-164.

     Not in our library10.1038/35055065

129. 129.

     Jacobson T, Navarrete C, Sharma SK, Sideri TC, Ibstedt S, Priya S, Grant CM, Christen P, Goloubinoff P, Tamas MJ. Arsenite interferes with protein folding and triggers formation of protein aggregates in yeast. J Cell Sci. 2012;125(Pt 21):5073-5083.

     Not in our library10.1242/jcs.107029

130. 130.

     Jain S, Wheeler JR, Walters RW, Agrawal A, Barsic A, Parker R. ATPase-modulated stress granules contain a diverse proteome and substructure. Cell. 2016;164(3):487-498.

     Not in our library10.1016/j.cell.2015.12.038

131. 131.

     Jang S, Nelson JC, Bend EG, Rodriguez-Laureano L, Tueros FG, Cartagenova L, Underwood K, Jorgensen EM, Colon-Ramos DA. Glycolytic enzymes localize to synapses under energy stress to support synaptic function. Neuron. 2016;90(2):278-291.

     Not in our library10.1016/j.neuron.2016.03.011

132. 132.

     Jang SR, Xuan Z, Lagoy RC, Jawerth LM, Gonzalez I, Singh M, Prashad S, Kim HS, Patel AR, Albrecht DR, Hyman AA, Colon-Ramos DA (2019) The glycolytic protein phosphofructokinase dynamically relocalizes into subcellular compartments with liquid-like properties in vivo. BioRxiv

     Not in our library10.1016/j.bpj.2020.08.002

133. 133.

     Ji Y, Gu J, Makhov AM, Griffith JD, Mitchell BS. Regulation of the interaction of inosine monophosphate dehydrogenase with mycophenolic Acid by GTP. J Biol Chem. 2006;281(1):206-212.

     Not in our library10.1074/jbc.m507056200

134. 134.
     Glycolytic Enzymes Coalesce in G Bodies under Hypoxic Stress · 2017

     Not checked
135. 135.

     Josephs R, Borisy G. Self-assembly of glutamic dehydrogenase into ordered superstructures: multichain tubes formed by association of single molecules. J Mol Biol. 1972;65(1):127-155.

     Not in our library10.1016/0022-2836(72)90496-2

136. 136.

     Kaguni JM. DnaA: controlling the initiation of bacterial DNA replication and more. Annu Rev Microbiol. 2006;60:351-375.

     Not in our library10.1146/annurev.micro.60.080805.142111

137. 137.

     Kang GJ, Cooney DA, Moyer JD, Kelley JA, Kim HY, Marquez VE, Johns DG. Cyclopentenylcytosine triphosphate. Formation and inhibition of CTP synthetase. J Biol Chem. 1989;264(2):713-718.

     Not in our library

138. 138.
     An unfolded protein-induced conformational switch activates mammalian IRE1 · 2017

     No notice
139. 139.

     Katayama T, Ozaki S, Keyamura K, Fujimitsu K. Regulation of the replication cycle: conserved and diverse regulatory systems for DnaA and oriC. Nat Rev Microbiol. 2010;8(3):163-170.

     Not in our library10.1038/nrmicro2314

140. 140.

     Kawata T, Masuda K, Yoshino K. Presence of fine spirals (spirosomes) in Lactobacillus fermenti and Lactobacillus casei. Jpn J Microbiol. 1975;19(3):225-227.

     Not in our library10.1111/j.1348-0421.1975.tb00872.x

141. 141.

     Kemp RG. Rabbit liver phosphofructokinase. Comparison of some properties with those of muscle phosphofructokinase. J Biol Chem. 1971;246(1):245-252.

     Not in our library

142. 142.

     Keppeke GD, Calise SJ, Chan EK, Andrade LE. Assembly of IMPDH2-based, CTPS-based, and mixed rod/ring structures is dependent on cell type and conditions of induction. J Genet Genomics. 2015;42(6):287-299.

     Not in our library10.1016/j.jgg.2015.04.002

143. 143.

     Keppeke GD, Chang CC, Peng M, Chen LY, Lin WC, Pai LM, Andrade LEC, Sung LY, Liu JL. IMP/GTP balance modulates cytoophidium assembly and IMPDH activity. Cell Div. 2018;13:5.

     Not in our library10.1186/s13008-018-0038-0

144. 144.

     Kessler D, Leibrecht I, Knappe J. Pyruvate-formate-lyase-deactivase and acetyl-CoA reductase activities of Escherichia coli reside on a polymeric protein particle encoded by adhE. FEBS Lett. 1991;281(1-2):59-63.

     Not in our library10.1016/0014-5793(91)80358-a

145. 145.

     Kessler D, Herth W, Knappe J. Ultrastructure and pyruvate formate-lyase radical quenching property of the multienzymic AdhE protein of Escherichia coli. J Biol Chem. 1992;267(25):18073-18079.

     Not in our library

146. 146.

     Kim YW, Kang KS, Kim SY, Kim IS. Formation of fibrillar multimers of oat beta-glucosidase isoenzymes is mediated by the As-Glu1 monomer. J Mol Biol. 2000;303(5):831-842.

     Not in our library10.1006/jmbi.2000.4130

147. 147.

     Kim SY, Kim YW, Hegerl R, Cyrklaff M, Kim IS. Novel type of enzyme multimerization enhances substrate affinity of oat beta-glucosidase. J Struct Biol. 2005;150(1):1-10.

     Not in our library10.1016/j.jsb.2004.07.007

148. 148.

     Kim CW, Moon YA, Park SW, Cheng D, Kwon HJ, Horton JD. Induced polymerization of mammalian acetyl-CoA carboxylase by MIG12 provides a tertiary level of regulation of fatty acid synthesis. Proc Natl Acad Sci U S A. 2010;107(21):9626-9631.

     Not in our library10.1073/pnas.1001292107

149. 149.
     The unfolded protein response in fission yeast modulates stability of select mRNAs to maintain protein homeostasis · 2012

     No notice
150. 150.

     Kleinschmidt AK, Moss J, Lane DM. Acetyl coenzyme A carboxylase: filamentous nature of the animal enzymes. Science. 1969;166(3910):1276-1278.

     Not in our library10.1126/science.166.3910.1276

151. 151.

     Kloos M, Bruser A, Kirchberger J, Schoneberg T, Strater N. Crystallization and preliminary crystallographic analysis of human muscle phosphofructokinase, the main regulator of glycolysis. Acta Crystallogr F Struct Biol Commun. 2014;70(Pt 5):578-582.

     Not in our library10.1107/s2053230x14008723

152. 152.

     Kloos M, Bruser A, Kirchberger J, Schoneberg T, Strater N. Crystal structure of human platelet phosphofructokinase-1 locked in an activated conformation. Biochem J. 2015;469(3):421-432.

     Not in our library10.1042/bj20150251

153. 153.

     Kobayashi I, Russo VEA, Martienssen RA, Riggs AD. DNA modification and restriction: selfish behavior of an epigenetic system. Epigenetic Mechanisms of Gene Regulation. 1996;155-172.

     Not in our library

154. 154.

     Kohnhorst CL, Kyoung M, Jeon M, Schmitt DL, Kennedy EL, Ramirez J, Bracey SM, Luu BT, Russell SJ, An S. Identification of a multienzyme complex for glucose metabolism in living cells. J Biol Chem. 2017;292(22):9191-9203.

     Not in our library10.1074/jbc.m117.783050

155. 155.

     Korennykh AV, Egea PF, Korostelev AA, Finer-Moore J, Zhang C, Shokat KM, Stroud RM, Walter P. The unfolded protein response signals through high-order assembly of Ire1. Nature. 2009;457(7230):687-693.

     Not in our library10.1038/nature07661

156. 156.

     Kozhevnikova EN, van der Knaap JA, Pindyurin AV, Ozgur Z, van Ijcken WF, Moshkin YM, Verrijzer CP. Metabolic enzyme IMPDH is also a transcription factor regulated by cellular state. Mol Cell. 2012;47(1):133-139.

     Not in our library10.1016/j.molcel.2012.04.030

157. 157.

     Kreis T, Vale R. Guidebook to the cytoskeletal and motor proteins. 1999.

     Not in our library

158. 158.

     Kumsta C, Jakob U. Redox-regulated chaperones. Biochemistry. 2009;48(22):4666-4676.

     Not in our library10.1021/bi9003556

159. 159.

     Kursula P, Flodin S, Ehn M, Hammarstrom M, Schuler H, Nordlund P, Stenmark P. Structure of the synthetase domain of human CTP synthetase, a target for anticancer therapy. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2006;62(Pt 7):613-617.

     Not in our library10.1107/s1744309106018136

160. 160.

     Labesse G, Alexandre T, Vaupre L, Salard-Arnaud I, Him JL, Raynal B, Bron P, Munier-Lehmann H. MgATP regulates allostery and fiber formation in IMPDHs. Structure. 2013;21(6):975-985.

     Not in our library10.1016/j.str.2013.03.011

161. 161.
     Conserved Streptococcus pneumoniae spirosomes suggest a single type of transformation pilus in competence. · 2015

     Not checked
162. 162.

     Lauritsen I, Willemoes M, Jensen KF, Johansson E, Harris P. Structure of the dimeric form of CTP synthase from Sulfolobus solfataricus. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011;67(Pt 2):201-208.

     Not in our library10.1107/s1744309110052334

163. 163.

     Lee KP, Dey M, Neculai D, Cao C, Dever TE, Sicheri F. Structure of the dual enzyme Ire1 reveals the basis for catalysis and regulation in nonconventional RNA splicing. Cell. 2008;132(1):89-100.

     Not in our library10.1016/j.cell.2007.10.057

164. 164.

     Leonard AC, Grimwade JE. Regulating DnaA complex assembly: it is time to fill the gaps. Curr Opin Microbiol. 2010;13(6):766-772.

     Not in our library10.1016/j.mib.2010.10.001

165. 165.

     Li H, Korennykh AV, Behrman SL, Walter P. Mammalian endoplasmic reticulum stress sensor IRE1 signals by dynamic clustering. Proc Natl Acad Sci U S A. 2010;107(37):16113-16118.

     Not in our library10.1073/pnas.1010580107

166. 166.

     Li M, Li C, Allen A, Stanley CA, Smith TJ. The structure and allosteric regulation of glutamate dehydrogenase. Neurochem Int. 2011;59(4):445-455.

     Not in our library10.1016/j.neuint.2010.10.017

167. 167.

     Li J, McQuade T, Siemer AB, Napetschnig J, Moriwaki K, Hsiao YS, Damko E, Moquin D, Walz T, McDermott A, Chan FK, Wu H. The RIP1/RIP3 necrosome forms a functional amyloid signaling complex required for programmed necrosis. Cell. 2012;150(2):339-350.

     Not in our library10.1016/j.cell.2012.06.019

168. 168.

     Li M, Li C, Allen A, Stanley CA, Smith TJ. The structure and allosteric regulation of mammalian glutamate dehydrogenase. Arch Biochem Biophys. 2012;519(2):69-80.

     Not in our library10.1016/j.abb.2011.10.015

169. 169.

     Li W, Okreglak V, Peschek J, Kimmig P, Zubradt M, Weissman JS, Walter P (2018) Engineering ER-stress dependent non-conventional mRNA splicing. Elife 7

     Not in our library10.7554/elife.35388

170. 170.

     Lightfoot DA, Baron AJ, Wootton JC. Expression of the Escherichia coli glutamate dehydrogenase gene in the cyanobacterium Synechococcus PCC6301 causes ammonium tolerance. Plant Mol Biol. 1988;11(3):335-344.

     Not in our library10.1007/bf00027390

171. 171.

     Lightfoot DA, Bernhardt K, Mungur R, Nolte S, Ameziane R, Colter A, Jones K, Iqbal MJ, Varsa E, Young B. Improved drought tolerance of transgenic Zea mays plants that express the glutamate dehydrogenase gene (gdhA) of E. coli. Euphytica. 2007;156:103-116.

     Not in our library

172. 172.

     Lin SC, Lo YC, Wu H. Helical assembly in the MyD88-IRAK4-IRAK2 complex in TLR/IL-1R signalling. Nature. 2010;465(7300):885-890.

     Not in our library10.1038/nature09121

173. 173.

     Litchfield DW. Protein kinase CK2: structure, regulation and role in cellular decisions of life and death. Biochem J. 2003;369(Pt 1):1-15.

     Not in our library10.1042/bj20021469

174. 174.

     Little EJ, Dunten PW, Bitinaite J, Horton NC. New clues in the allosteric activation of DNA cleavage by SgrAI: structures of SgrAI bound to cleaved primary-site DNA and uncleaved secondary-site DNA. Acta Crystallogr D Biol Crystallogr. 2011;67(Pt 1):67-74.

     Not in our library10.1107/s0907444910047785

175. 175.

     Liu JL. Intracellular compartmentation of CTP synthase in Drosophila. J Genet Genomics. 2010;37(5):281-296.

     Not in our library10.1016/s1673-8527(09)60046-1

176. 176.

     Liu JL. The cytoophidium and its kind: filamentation and compartmentation of metabolic enzymes. Annu Rev Cell Dev Biol. 2016;32:349-372.

     Not in our library10.1146/annurev-cellbio-111315-124907

177. 177.

     Lolli G, Ranchio A, Battistutta R. Active form of the protein kinase CK2 alpha2beta2 holoenzyme is a strong complex with symmetric architecture. ACS Chem Biol. 2014;9(2):366-371.

     Not in our library10.1021/cb400771y

178. 178.
     Analysis of the expression patterns, subcellular localisations and interaction partners of Drosophila proteins using a pigP protein trap library · 2014

     No notice
179. 179.

     Lu A, Wu H. Structural mechanisms of inflammasome assembly. FEBS J. 2015;282(3):435-444.

     Not in our library10.1111/febs.13133

180. 180.

     Lu A, Magupalli VG, Ruan J, Yin Q, Atianand MK, Vos MR, Schroder GF, Fitzgerald KA, Wu H, Egelman EH. Unified polymerization mechanism for the assembly of ASC-dependent inflammasomes. Cell. 2014;156(6):1193-1206.

     Not in our library10.1016/j.cell.2014.02.008

181. 181.

     Lu Y, Liang FX, Wang X. A synthetic biology approach identifies the mammalian UPR RNA ligase RtcB. Mol Cell. 2014;55(5):758-770.

     Not in our library10.1016/j.molcel.2014.06.032

182. 182.

     Lu A, Li Y, Schmidt FI, Yin Q, Chen S, Fu TM, Tong AB, Ploegh HL, Mao Y, Wu H. Molecular basis of caspase-1 polymerization and its inhibition by a new capping mechanism. Nat Struct Mol Biol. 2016;23(5):416-425.

     Not in our library10.1038/nsmb.3199

183. 183.

     Lusetti SL, Cox MM. The bacterial RecA protein and the recombinational DNA repair of stalled replication forks. Annu Rev Biochem. 2002;71:71-100.

     Not in our library10.1146/annurev.biochem.71.083101.133940

184. 184.

     Lynch EM, Hicks DR, Shepherd M, Endrizzi JA, Maker A, Hansen JM, Barry RM, Gitai Z, Baldwin EP, Kollman JM. Human CTP synthase filament structure reveals the active enzyme conformation. Nat Struct Mol Biol. 2017;24(6):507-514.

     Not in our library10.1038/nsmb.3407

185. 185.

     Lyumkis D, Talley H, Stewart A, Shah S, Park CK, Tama F, Potter CS, Carragher B, Horton NC. Allosteric regulation of DNA cleavage and sequence-specificity through run-on oligomerization. Structure. 2013;21(10):1848-1858.

     Not in our library10.1016/j.str.2013.08.012

186. 186.

     Ma X, Shah S, Zhou M, Park CK, Wysocki VH, Horton NC. Structural analysis of activated SgrAI-DNA oligomers using ion mobility mass spectrometry. Biochemistry. 2013;52(25):4373-4381.

     Not in our library10.1021/bi3013214

187. 187.

     Magnard C, Bachelier R, Vincent A, Jaquinod M, Kieffer S, Lenoir GM, Venezia ND. BRCA1 interacts with acetyl-CoA carboxylase through its tandem of BRCT domains. Oncogene. 2002;21(44):6729-6739.

     Not in our library10.1038/sj.onc.1205915

188. 188.

     Maia LB, Moura JJ, Moura I. Molybdenum and tungsten-dependent formate dehydrogenases. J Biol Inorg Chem. 2015;20(2):287-309.

     Not in our library10.1007/s00775-014-1218-2

189. 189.

     Maitra PK. A glucokinase from Saccharomyces cerevisiae. J Biol Chem. 1970;245(9):2423-2431.

     Not in our library

190. 190.

     Mamrack MD. Stimulation of enzymatic activity in filament preparations of casein kinase II by polylysine, melittin, and spermine. Mol Cell Biochem. 1989;85(2):147-157.

     Not in our library10.1007/bf00577110

191. 191.

     Martin E, Palmic N, Sanquer S, Lenoir C, Hauck F, Mongellaz C, Fabrega S, Nitschke P, Esposti MD, Schwartzentruber J, Taylor N, Majewski J, Jabado N, Wynn RF, Picard C, Fischer A, Arkwright PD, Latour S. CTP synthase 1 deficiency in humans reveals its central role in lymphocyte proliferation. Nature. 2014;510(7504):288-292.

     Not in our library10.1038/nature13386

192. 192.

     Mates JM, Segura JA, Campos-Sandoval JA, Lobo C, Alonso L, Alonso FJ, Marquez J. Glutamine homeostasis and mitochondrial dynamics. Int J Biochem Cell Biol. 2009;41(10):2051-2061.

     Not in our library10.1016/j.biocel.2009.03.003

193. 193.

     Maurel M, Chevet E, Tavernier J, Gerlo S. Getting RIDD of RNA: IRE1 in cell fate regulation. Trends Biochem Sci. 2014;39(5):245-254.

     Not in our library10.1016/j.tibs.2014.02.008

194. 194.

     Meggio F, Pinna LA. One-thousand-and-one substrates of protein kinase CK2? FASEB J. 2003;17(3):349-368.

     Not in our library10.1096/fj.02-0473rev

195. 195.

     Meredith MJ, Lane MD. Acetyl-CoA carboxylase. Evidence for polymeric filament to protomer transition in the intact avian liver cell. J Biol Chem. 1978;253(10):3381-3383.

     Not in our library

196. 196.

     Miller RE, Shelton E, Stadtman ER. Zinc-induced paracrystalline aggregation of glutamine synthetase. Arch Biochem Biophys. 1974;163(1):155-171.

     Not in our library10.1016/0003-9861(74)90465-2

197. 197.

     Mishiba K, Nagashima Y, Suzuki E, Hayashi N, Ogata Y, Shimada Y, Koizumi N. Defects in IRE1 enhance cell death and fail to degrade mRNAs encoding secretory pathway proteins in the Arabidopsis unfolded protein response. Proc Natl Acad Sci U S A. 2013;110(14):5713-5718.

     Not in our library10.1073/pnas.1219047110

198. 198.

     Miura N, Shinohara M, Tatsukami Y, Sato Y, Morisaka H, Kuroda K, Ueda M. Spatial reorganization of Saccharomyces cerevisiae enolase to alter carbon metabolism under hypoxia. Eukaryot Cell. 2013;12(8):1106-1119.

     Not in our library10.1128/ec.00093-13

199. 199.

     Mompean M, Li W, Li J, Laage S, Siemer AB, Bozkurt G, Wu H, McDermott AE. The Structure of the necrosome RIPK1-RIPK3 core, a human hetero-amyloid signaling complex. Cell. 2018;173(5):1244-1253.

     Not in our library10.1016/j.cell.2018.03.032

200. 200.

     Moon JC, Hah YS, Kim WY, Jung BG, Jang HH, Lee JR, Kim SY, Lee YM, Jeon MG, Kim CW, Cho MJ, Lee SY. Oxidative stress-dependent structural and functional switching of a human 2-Cys peroxiredoxin isotype II that enhances HeLa cell resistance to H2O2-induced cell death. J Biol Chem. 2005;280(31):28775-28784.

     Not in our library10.1074/jbc.m505362200

201. 201.

     Moore K, Hollien J. Ire1-mediated decay in mammalian cells relies on mRNA sequence, structure, and translational status. Mol Biol Cell. 2015;26(16):2873-2884.

     Not in our library10.1091/mbc.e15-02-0074

202. 202.

     Moquin D, Chan FK. The molecular regulation of programmed necrotic cell injury. Trends Biochem Sci. 2010;35(8):434-441.

     Not in our library10.1016/j.tibs.2010.03.001

203. 203.

     Moreno-Sanchez R, Marin-Hernandez A, Gallardo-Perez JC, Quezada H, Encalada R, Rodriguez-Enriquez S, Saavedra E. Phosphofructokinase type 1 kinetics, isoform expression, and gene polymorphisms in cancer cells. J Cell Biochem. 2012;113(5):1692-1703.

     Not in our library10.1002/jcb.24039

204. 204.

     Mori K, Ma W, Gething MJ, Sambrook J. A transmembrane protein with a cdc2+/CDC28-related kinase activity is required for signaling from the ER to the nucleus. Cell. 1993;74(4):743-756.

     Not in our library10.1016/0092-8674(93)90521-q

205. 205.

     Moss J, Lane MD. Acetyl coenzyme A carboxylase. IV. Biotinyl prosthetic group-independent malonyl coenzyme A decarboxylation and carbosyl transfer: generalization to other biotin enzymes. J Biol Chem. 1972;247(16):4952-4959.

     Not in our library

206. 206.

     Mungur R, Glass AD, Goodenow DB, Lightfoot DA. Metabolite fingerprinting in transgenic Nicotiana tabacum altered by the Escherichia coli glutamate dehydrogenase gene. J Biomed Biotechnol. 2005;2005(2):198-214.

     Not in our library10.1155/jbb.2005.198

207. 207.

     Nagai M, Natsumeda Y, Konno Y, Hoffman R, Irino S, Weber G. Selective up-regulation of type II inosine 5'-monophosphate dehydrogenase messenger RNA expression in human leukemias. Cancer Res. 1991;51(15):3886-3890.

     Not in our library

208. 208.

     Nagasawa T, Wieser M, Nakamura T, Iwahara H, Yoshida T, Gekko K. Nitrilase of Rhodococcus rhodochrous J1. Conversion into the active form by subunit association. Eur J Biochem. 2000;267(1):138-144.

     Not in our library10.1046/j.1432-1327.2000.00983.x

209. 209.

     Naidoo N, Giang W, Galante RJ, Pack AI. Sleep deprivation induces the unfolded protein response in mouse cerebral cortex. J Neurochem. 2005;92(5):1150-1157.

     Not in our library10.1111/j.1471-4159.2004.02952.x

210. 210.

     Nair V, Shu Q. Inosine monophosphate dehydrogenase as a probe in antiviral drug discovery. Antivir Chem Chemother. 2007;18(5):245-258.

     Not in our library10.1177/095632020701800501

211. 211.

     Nair V, Ma X, Shu Q, Zhang F, Uchil V, Cherukupalli GR. IMPDH as a biological probe for RNA antiviral drug discovery: synthesis, enzymology, molecular docking, and antiviral activity of new ribonucleosides with surrogate bases. Nucleosides Nucleotides Nucleic Acids. 2007;26(6-7):651-654.

     Not in our library10.1080/15257770701490506

212. 212.

     Nakamura D, Tsuru A, Ikegami K, Imagawa Y, Fujimoto N, Kohno K. Mammalian ER stress sensor IRE1beta specifically down-regulates the synthesis of secretory pathway proteins. FEBS Lett. 2011;585(1):133-138.

     Not in our library10.1016/j.febslet.2010.12.002

213. 213.

     Narayanaswamy R, Levy M, Tsechansky M, Stovall GM, O’Connell JD, Mirrielees J, Ellington AD, Marcotte EM. Widespread reorganization of metabolic enzymes into reversible assemblies upon nutrient starvation. Proc Natl Acad Sci U S A. 2009;106(25):10147-10152.

     Not in our library10.1073/pnas.0812771106

214. 214.

     Niefind K, Guerra B, Ermakowa I, Issinger OG. Crystal structure of human protein kinase CK2: insights into basic properties of the CK2 holoenzyme. EMBO J. 2001;20(19):5320-5331.

     Not in our library10.1093/emboj/20.19.5320

215. 215.

     Nisius A. The stromacentre inAvena plastids: an aggregation ofbeta-glucosidase responsible for the activation of oat-leaf saponins. Planta. 1988;173(4):474-481.

     Not in our library10.1007/bf00958960

216. 216.

     Nisius A, Ruppel HG. Immunocytological and chemical studies on the stromacentre-forming protein from Avena plastids. Planta. 1987;171(4):443-452.

     Not in our library10.1007/bf00392291

217. 217.

     Niwa M, Patil CK, DeRisi J, Walter P. Genome-scale approaches for discovering novel nonconventional splicing substrates of the Ire1 nuclease. Genome Biol. 2005;6(1):R3.

     Not in our library10.1186/gb-2004-6-1-r3

218. 218.

     Noichri Y, Palais G, Ruby V, D'Autreaux B, Delaunay-Moisan A, Nystrom T, Molin M, Toledano MB. In vivo parameters influencing 2-Cys Prx oligomerization: the role of enzyme sulfinylation. Redox Biol. 2015;6:326-333.

     Not in our library10.1016/j.redox.2015.08.011

219. 219.

     Noree C, Sato BK, Broyer RM, Wilhelm JE. Identification of novel filament-forming proteins in Saccharomyces cerevisiae and Drosophila melanogaster. J Cell Biol. 2010;190(4):541-551.

     Not in our library10.1083/jcb.201003001

220. 220.

     Noree C, Monfort E, Shiau AK, Wilhelm JE. Common regulatory control of CTP synthase enzyme activity and filament formation. Mol Biol Cell. 2014;25(15):2282-2290.

     Not in our library10.1091/mbc.e14-04-0912

221. 221.

     Noree C, Begovich K, Samilo D, Broyer R, Monfort E, Wilhelm JE. A quantitative screen for metabolic enzyme structures reveals patterns of assembly across the yeast metabolic network. Mol Biol Cell. 2019;30(21):2721-2736.

     Not in our library10.1091/mbc.e19-04-0224

222. 222.

     Noree C, Sirinonthanawech N, Wilhelm JE. Saccharomyces cerevisiae ASN1 and ASN2 are asparagine synthetase paralogs that have diverged in their ability to polymerize in response to nutrient stress. Sci Rep. 2019;9(1):278.

     Not in our library10.1038/s41598-018-36719-z

223. 223.
     Filament formation by the translation factor eIF2B regulates protein synthesis in starved cells · 2020

     Not checked
224. 224.

     O’Connell JD, Zhao A, Ellington AD, Marcotte EM. Dynamic reorganization of metabolic enzymes into intracellular bodies. Annu Rev Cell Dev Biol. 2012;28:89-111.

     Not in our library10.1146/annurev-cellbio-101011-155841

225. 225.

     O’Connell JD, Tsechansky M, Royall A, Boutz DR, Ellington AD, Marcotte EM. A proteomic survey of widespread protein aggregation in yeast. Mol BioSyst. 2014;10(4):851-861.

     Not in our library10.1039/c3mb70508k

226. 226.

     Olsen BR, Svenneby G, Kvamme E, Tveit B, Eskeland T. Formation and ultrastructure of enzymically active polymers of pig renal glutaminase. J Mol Biol. 1970;52(2):239-245.

     Not in our library10.1016/0022-2836(70)90028-8

227. 227.

     Olson JA, Anfinsen CB. The crystallization and characterization of L-glutamic acid dehydrogenase. J Biol Chem. 1952;197(1):67-79.

     Not in our library

228. 228.

     Oosawa F, Asakura S. Thermodynamics of the polymerization of protein. 1975.

     Not in our library

229. 229.

     Orij R, Postmus J, Ter Beek A, Brul S, Smits GJ. In vivo measurement of cytosolic and mitochondrial pH using a pH-sensitive GFP derivative in Saccharomyces cerevisiae reveals a relation between intracellular pH and growth. Microbiology. 2009;155(Pt 1):268-278.

     Not in our library10.1099/mic.0.022038-0

230. 230.

     Orij R, Brul S, Smits GJ. Intracellular pH is a tightly controlled signal in yeast. Biochim Biophys Acta. 2011;1810(10):933-944.

     Not in our library10.1016/j.bbagen.2011.03.011

231. 231.
     Genome-wide analysis of intracellular pH reveals quantitative control of cell division rate by pHc in Saccharomyces cerevisiae · 2012

     No notice
232. 232.

     Pace HC, Brenner C. The nitrilase superfamily: classification, structure and function. Genome Biol. 2001;2(1):REVIEWS0001.

     Not in our library10.1186/gb-2001-2-1-reviews0001

233. 233.

     Pandey R, Heeger S, Lehner CF. Rapid effects of acute anoxia on spindle kinetochore interactions activate the mitotic spindle checkpoint. J Cell Sci. 2007;120(Pt 16):2807-2818.

     Not in our library10.1242/jcs.007690

234. 234.

     Park CK, Stiteler AP, Shah S, Ghare MI, Bitinaite J, Horton NC. Activation of DNA cleavage by oligomerization of DNA-bound SgrAI. Biochemistry. 2010;49(41):8818-8830.

     Not in our library10.1021/bi100557v

235. 235.

     Park S, Hwang IW, Makishima Y, Perales-Clemente E, Kato T, Niederlander NJ, Park EY, Terzic A. Spot14/Mig12 heterocomplex sequesters polymerization and restrains catalytic function of human acetyl-CoA carboxylase 2. J Mol Recognit. 2013;26(12):679-688.

     Not in our library10.1002/jmr.2313

236. 236.

     Park CK, Sanchez JL, Barahona C, Basantes LE, Sanchez J, Hernandez C, Horton NC. The run-on oligomer filament enzyme mechanism of SgrAI: Part 1. Assembly kinetics of the run-on oligomer filament. J Biol Chem. 2018;293(38):14585-14598.

     Not in our library10.1074/jbc.ra118.003680

237. 237.

     Park CK, Sanchez JL, Barahona C, Basantes LE, Sanchez J, Hernandez C, Horton NC. The run-on oligomer filament enzyme mechanism of SgrAI: Part 2. Kinetic modeling of the full DNA cleavage pathway. J Biol Chem. 2018;293(38):14599-14615.

     Not in our library10.1074/jbc.ra118.003682

238. 238.

     Peitsaro N, Polianskyte Z, Tuimala J, Porn-Ares I, Liobikas J, Speer O, Lindholm D, Thompson J, Eriksson O. Evolution of a family of metazoan active-site-serine enzymes from penicillin-binding proteins: a novel facet of the bacterial legacy. BMC Evol Biol. 2008;8:26.

     Not in our library10.1186/1471-2148-8-26

239. 239.

     Peters LZ, Hazan R, Breker M, Schuldiner M, Ben-Aroya S. Formation and dissociation of proteasome storage granules are regulated by cytosolic pH. J Cell Biol. 2013;201(5):663-671.

     Not in our library10.1083/jcb.201211146

240. 240.
     Filament formation by metabolic enzymes is a specific adaptation to an advanced state of cellular starvation · 2014

     No notice
241. 241.

     Phalen TJ, Weirather K, Deming PB, Anathy V, Howe AK, van der Vliet A, Jonsson TJ, Poole LB, Heintz NH. Oxidation state governs structural transitions in peroxiredoxin II that correlate with cell cycle arrest and recovery. J Cell Biol. 2006;175(5):779-789.

     Not in our library10.1083/jcb.200606005

242. 242.
     Type II restriction endonucleases—a historical perspective and more · 2014

     No notice
243. 243.
     An Ancient Pathway Combining Carbon Dioxide Fixation with the Generation and Utilization of a Sodium Ion Gradient for ATP Synthesis · 2012

     No notice
244. 244.

     Polianskyte Z, Peitsaro N, Dapkunas A, Liobikas J, Soliymani R, Lalowski M, Speer O, Seitsonen J, Butcher S, Cereghetti GM, Linder MD, Merckel M, Thompson J, Eriksson O. LACTB is a filament-forming protein localized in mitochondria. Proc Natl Acad Sci U S A. 2009;106(45):18960-18965.

     Not in our library10.1073/pnas.0906734106

245. 245.

     Politi PM, Xie F, Dahut W, Ford H, Kelley JA, Bastian A, Setser A, Allegra CJ, Chen AP, Hamilton JM, et al. Phase I clinical trial of continuous infusion cyclopentenyl cytosine. Cancer Chemother Pharmacol. 1995;36(6):513-523.

     Not in our library10.1007/bf00685802

246. 246.

     Pollegioni L, Piubelli L, Sacchi S, Pilone MS, Molla G. Physiological functions of D-amino acid oxidases: from yeast to humans. Cell Mol Life Sci. 2007;64(11):1373-1394.

     Not in our library10.1007/s00018-007-6558-4

247. 247.

     Polley S, Lyumkis D, Horton NC. Mechanism of filamentation-induced allosteric activation of the SgrAI endonuclease. Structure. 2019;27(10):1497-1507.

     Not in our library10.1016/j.str.2019.08.001

248. 248.

     Poole A, Poore T, Bandhakavi S, McCann RO, Hanna DE, Glover CV. A global view of CK2 function and regulation. Mol Cell Biochem. 2005;274(1-2):163-170.

     Not in our library10.1007/s11010-005-2945-z

249. 249.

     Poothong J, Tirasophon W, Kaufman RJ (2017) Functional analysis of the mammalian RNA ligase for IRE1 in the unfolded protein response. Biosci Rep 37(2)

     Not in our library10.1042/bsr20160574

250. 250.
     Regulation of Cellular Metabolism through Phase Separation of Enzymes · 2018

     Not checked
251. 251.

     Prouteau M, Desfosses A, Sieben C, Bourgoint C, Lydia Mozaffari N, Demurtas D, Mitra AK, Guichard P, Manley S, Loewith R. TORC1 organized in inhibited domains (TOROIDs) regulate TORC1 activity. Nature. 2017;550(7675):265-269.

     Not in our library10.1038/nature24021

252. 252.

     Puerto-Galan L, Perez-Ruiz JM, Ferrandez J, Cano B, Naranjo B, Najera VA, Gonzalez M, Lindahl AM, Cejudo FJ. Overoxidation of chloroplast 2-Cys peroxiredoxins: balancing toxic and signaling activities of hydrogen peroxide. Front Plant Sci. 2013;4:310.

     Not in our library10.3389/fpls.2013.00310

253. 253.

     Radding CM. Recombination activities of E. coli recA protein. Cell. 1981;25(1):3-4.

     Not in our library10.1016/0092-8674(81)90224-5

254. 254.

     Ranjit S, Dvornikov A, Holland DA, Reinhart GD, Jameson DM, Gratton E. Application of three-photon excitation FCS to the study of protein oligomerization. J Phys Chem B. 2014;118(50):14627-14631.

     Not in our library10.1021/jp511126x

255. 255.

     Ratcliffe AJ. Inosine 5'-monophosphate dehydrogenase inhibitors for the treatment of autoimmune diseases. Curr Opin Drug Discov Devel. 2006;9(5):595-605.

     Not in our library

256. 256.

     Ray H, Suau F, Vincent A, Dalla Venezia N. Cell cycle regulation of the BRCA1/acetyl-CoA-carboxylase complex. Biochem Biophys Res Commun. 2009;378(3):615-619.

     Not in our library10.1016/j.bbrc.2008.11.090

257. 257.

     Reinhart GD, Lardy HA. Rat liver phosphofructokinase: kinetic and physiological ramifications of the aggregation behavior. Biochemistry. 1980;19(7):1491-1495.

     Not in our library10.1021/bi00548a036

258. 258.

     Ristow M, Carlqvist H, Hebinck J, Vorgerd M, Krone W, Pfeiffer A, Muller-Wieland D, Ostenson CG. Deficiency of phosphofructo-1-kinase/muscle subtype in humans is associated with impairment of insulin secretory oscillations. Diabetes. 1999;48(8):1557-1561.

     Not in our library10.2337/diabetes.48.8.1557

259. 259.

     Ristow M, Vorgerd M, Mohlig M, Schatz H, Pfeiffer A. Insulin resistance and impaired insulin secretion due to phosphofructo-1-kinase-deficiency in humans. J Mol Med (Berl). 1999;77(1):96-103.

     Not in our library10.1007/s001090050311

260. 260.

     Rudolph FB. The biochemistry and physiology of nucleotides. J Nutr. 1994;124(1 Suppl):124S-127S.

     Not in our library10.1093/jn/124.suppl_1.124s

261. 261.

     Saad S, Cereghetti G, Feng Y, Picotti P, Peter M, Dechant R. Reversible protein aggregation is a protective mechanism to ensure cell cycle restart after stress. Nat Cell Biol. 2017;19(10):1202-1213.

     Not in our library10.1038/ncb3600

262. 262.

     Saarikangas J, Barral Y. Protein aggregation as a mechanism of adaptive cellular responses. Curr Genet. 2016;62(4):711-724.

     Not in our library10.1007/s00294-016-0596-0

263. 263.

     Saccoccia F, Di Micco P, Boumis G, Brunori M, Koutris I, Miele AE, Morea V, Sriratana P, Williams DL, Bellelli A, Angelucci F. Moonlighting by different stressors: crystal structure of the chaperone species of a 2-Cys peroxiredoxin. Structure. 2012;20(3):429-439.

     Not in our library10.1016/j.str.2012.01.004

264. 264.

     Saggerson D. Malonyl-CoA, a key signaling molecule in mammalian cells. Annu Rev Nutr. 2008;28:253-272.

     Not in our library10.1146/annurev.nutr.28.061807.155434

265. 265.

     Sawers G. The hydrogenases and formate dehydrogenases of Escherichia coli. Antonie Van Leeuwenhoek. 1994;66(1-3):57-88.

     Not in our library10.1007/bf00871633

266. 266.

     Schnitzler A, Olsen BB, Issinger OG, Niefind K. The protein kinase CK2(Andante) holoenzyme structure supports proposed models of autoregulation and trans-autophosphorylation. J Mol Biol. 2014;426(9):1871-1882.

     Not in our library10.1016/j.jmb.2014.02.018

267. 267.

     Schoneberg T, Kloos M, Bruser A, Kirchberger J, Strater N. Structure and allosteric regulation of eukaryotic 6-phosphofructokinases. Biol Chem. 2013;394(8):977-993.

     Not in our library10.1515/hsz-2013-0130

268. 268.

     Schuchmann K, Muller V. Direct and reversible hydrogenation of CO2 to formate by a bacterial carbon dioxide reductase. Science. 2013;342(6164):1382-1385.

     Not in our library10.1126/science.1244758

269. 269.

     Schuchmann K, Muller V. Autotrophy at the thermodynamic limit of life: a model for energy conservation in acetogenic bacteria. Nat Rev Microbiol. 2014;12(12):809-821.

     Not in our library10.1038/nrmicro3365

270. 270.

     Schuchmann K, Vonck J, Muller V. A bacterial hydrogen-dependent CO2 reductase forms filamentous structures. FEBS J. 2016;283(7):1311-1322.

     Not in our library10.1111/febs.13670

271. 271.

     Schwock J, Kirchberger J, Edelmann A, Kriegel TM, Kopperschlager G. Interaction of 6-phosphofructokinase with cytosolic proteins of Saccharomyces cerevisiae. Yeast. 2004;21(6):483-494.

     Not in our library10.1002/yea.1114

272. 272.

     Seetoh WG, Chan DS, Matak-Vinkovic D, Abell C. Mass Spectrometry Reveals Protein Kinase CK2 High-Order Oligomerization via the Circular and Linear Assembly. ACS Chem Biol. 2016;11(6):1511-1517.

     Not in our library10.1021/acschembio.6b00064

273. 273.

     Selwood T, Jaffe EK. Dynamic dissociating homo-oligomers and the control of protein function. Arch Biochem Biophys. 2012;519(2):131-143.

     Not in our library10.1016/j.abb.2011.11.020

274. 274.

     Selwood T, Tang L, Lawrence SH, Anokhina Y, Jaffe EK. Kinetics and thermodynamics of the interchange of the morpheein forms of human porphobilinogen synthase. Biochemistry. 2008;47(10):3245-3257.

     Not in our library10.1021/bi702113z

275. 275.

     Sener A, Malaisse WJ. L-leucine and a nonmetabolized analogue activate pancreatic islet glutamate dehydrogenase. Nature. 1980;288(5787):187-189.

     Not in our library10.1038/288187a0

276. 276.

     Sewell BT, Berman MN, Meyers PR, Jandhyala D, Benedik MJ. The cyanide degrading nitrilase from Pseudomonas stutzeri AK61 is a two-fold symmetric, 14-subunit spiral. Structure. 2003;11(11):1413-1422.

     Not in our library10.1016/j.str.2003.10.005

277. 277.
     Probing the run-on oligomer of activated SgrAI bound to DNA. · 2015

     Not checked
278. 278.

     Shashidharan P, Plaitakis A. The discovery of human of GLUD2 glutamate dehydrogenase and its implications for cell function in health and disease. Neurochem Res. 2014;39(3):460-470.

     Not in our library10.1007/s11064-013-1227-5

279. 279.

     Shen Y, Tong L. Structural evidence for direct interactions between the BRCT domains of human BRCA1 and a phospho-peptide from human ACC1. Biochemistry. 2008;47(21):5767-5773.

     Not in our library10.1021/bi800314m

280. 280.
     Filamentation of Metabolic Enzymes in Saccharomyces cerevisiae · 2016

     No notice
281. 281.

     Sidrauski C, Cox JS, Walter P. tRNA ligase is required for regulated mRNA splicing in the unfolded protein response. Cell. 1996;87(3):405-413.

     Not in our library10.1016/s0092-8674(00)81361-6

282. 282.

     Smith HQ, Smith TJ. Identification of a novel activator of mammalian glutamate dehydrogenase. Biochemistry. 2016;55(47):6568-6576.

     Not in our library10.1021/acs.biochem.6b00979

283. 283.

     Smith TS, Southan C, Ellington K, Campbell D, Tew DG, Debouck C. Identification, genomic organization, and mRNA expression of LACTB, encoding a serine beta-lactamase-like protein with an amino-terminal transmembrane domain. Genomics. 2001;78(1-2):12-14.

     Not in our library10.1006/geno.2001.6643

284. 284.

     Stanley CA, Lieu YK, Hsu BY, Burlina AB, Greenberg CR, Hopwood NJ, Perlman K, Rich BH, Zammarchi E, Poncz M. Hyperinsulinism and hyperammonemia in infants with regulatory mutations of the glutamate dehydrogenase gene. N Engl J Med. 1998;338(19):1352-1357.

     Not in our library10.1056/nejm199805073381904

285. 285.

     Stanley CA, Fang J, Kutyna K, Hsu BY, Ming JE, Glaser B, Poncz M. Molecular basis and characterization of the hyperinsulinism/hyperammonemia syndrome: predominance of mutations in exons 11 and 12 of the glutamate dehydrogenase gene. HI/HA Contributing Investigators. Diabetes. 2000;49(4):667-673.

     Not in our library10.2337/diabetes.49.4.667

286. 286.

     Stiede K, Miao W, Blanchette HS, Beysen C, Harriman G, Harwood HJ, Kelley H, Kapeller R, Schmalbach T, Westlin WF. Acetyl-coenzyme A carboxylase inhibition reduces de novo lipogenesis in overweight male subjects: a randomized, double-blind, crossover study. Hepatology. 2017;66(2):324-334.

     Not in our library10.1002/hep.29246

287. 287.

     Stoddard PR, Lynch EM, Farrell DP, Justman QA, Dosey AM, DiMaio F, Williams TA, Kollman JM, Murray AW, Garner EC. Independent evolution of polymerization in the Actin ATPase clan regulates hexokinase activity. bioRxiv. 2019;PPR:PPR84236.

     Not in our library10.1126/science.aay5359

288. 288.

     Strochlic TI, Stavrides KP, Thomas SV, Nicolas E, O'Reilly AM, Peterson JR. Ack kinase regulates CTP synthase filaments during Drosophila oogenesis. EMBO Rep. 2014;15(11):1184-1191.

     Not in our library10.15252/embr.201438688

289. 289.

     Sun L, Wang H, Wang Z, He S, Chen S, Liao D, Wang L, Yan J, Liu W, Lei X, Wang X. Mixed lineage kinase domain-like protein mediates necrosis signaling downstream of RIP3 kinase. Cell. 2012;148(1-2):213-227.

     Not in our library10.1016/j.cell.2011.11.031

290. 290.

     Suresh HG, da Silveira Dos Santos AX, Kukulski W, Tyedmers J, Riezman H, Bukau B, Mogk A. Prolonged starvation drives reversible sequestration of lipid biosynthetic enzymes and organelle reorganization in Saccharomyces cerevisiae. Mol Biol Cell. 2015;26(9):1601-1615.

     Not in our library10.1091/mbc.e14-11-1559

291. 291.

     Svensson RU, Parker SJ, Eichner LJ, Kolar MJ, Wallace M, Brun SN, Lombardo PS, Van Nostrand JL, Hutchins A, Vera L, Gerken L, Greenwood J, Bhat S, Harriman G, Westlin WF, Harwood HJ, Saghatelian A, Kapeller R, Metallo CM, Shaw RJ. Inhibition of acetyl-CoA carboxylase suppresses fatty acid synthesis and tumor growth of non-small-cell lung cancer in preclinical models. Nat Med. 2016;22(10):1108-1119.

     Not in our library10.1038/nm.4181

292. 292.

     Swinnen JV, Brusselmans K, Verhoeven G. Increased lipogenesis in cancer cells: new players, novel targets. Curr Opin Clin Nutr Metab Care. 2006;9(4):358-365.

     Not in our library10.1097/01.mco.0000232894.28674.30

293. 293.

     Szeliga M, Obara-Michlewska M. Glutamine in neoplastic cells: focus on the expression and roles of glutaminases. Neurochem Int. 2009;55(1-3):71-75.

     Not in our library10.1016/j.neuint.2009.01.008

294. 294.

     Tam AB, Koong AC, Niwa M. Ire1 has distinct catalytic mechanisms for XBP1/HAC1 splicing and RIDD. Cell Rep. 2014;9(3):850-858.

     Not in our library10.1016/j.celrep.2014.09.016

295. 295.

     Tang L, Stith L, Jaffe EK. Substrate-induced interconversion of protein quaternary structure isoforms. J Biol Chem. 2005;280(16):15786-15793.

     Not in our library10.1074/jbc.m500218200

296. 296.

     Tang L, Breinig S, Stith L, Mischel A, Tannir J, Kokona B, Fairman R, Jaffe EK. Single amino acid mutations alter the distribution of human porphobilinogen synthase quaternary structure isoforms (morpheeins). J Biol Chem. 2006;281(10):6682-6690.

     Not in our library10.1074/jbc.m511134200

297. 297.

     Tautz N, Kaluza K, Frey B, Jarsch M, Schmitz GG, Kessler C. SgrAI, a novel class-II restriction endonuclease from Streptomyces griseus recognizing the octanucleotide sequence 5'-CR/CCGGYG-3' [corrected]. Nucleic Acids Res. 1990;18(10):3087.

     Not in our library10.1093/nar/18.10.3087

298. 298.

     Teixeira F, Tse E, Castro H, Makepeace KAT, Meinen BA, Borchers CH, Poole LB, Bardwell JC, Tomas AM, Southworth DR, Jakob U. Chaperone activation and client binding of a 2-cysteine peroxiredoxin. Nat Commun. 2019;10(1):659.

     Not in our library10.1038/s41467-019-08565-8

299. 299.

     Telford JN, Lad PM, Hammes GG. Electron microscope study of native and crosslinked rabbit muscle phosphofructokinase. Proc Natl Acad Sci U S A. 1975;72(8):3054-3056.

     Not in our library10.1073/pnas.72.8.3054

300. 300.

     Thanki CM, Sugden D, Thomas AJ, Bradford HF. In vivo release from cerebral cortex of [14C]glutamate synthesized from [U-14C]glutamine. J Neurochem. 1983;41(3):611-617.

     Not in our library10.1111/j.1471-4159.1983.tb04785.x

301. 301.

     Thayer NH, Leverich CK, Fitzgibbon MP, Nelson ZW, Henderson KA, Gafken PR, Hsu JJ, Gottschling DE. Identification of long-lived proteins retained in cells undergoing repeated asymmetric divisions. Proc Natl Acad Sci U S A. 2014;111(39):14019-14026.

     Not in our library10.1073/pnas.1416079111

302. 302.

     Thomas EC, Gunter JH, Webster JA, Schieber NL, Oorschot V, Parton RG, Whitehead JP. Different characteristics and nucleotide binding properties of inosine monophosphate dehydrogenase (IMPDH) isoforms. PLoS One. 2012;7(12):e51096.

     Not in our library10.1371/journal.pone.0051096

303. 303.

     Thomas WC, Brooks FP, Burnim AA, Bacik JP, Stubbe J, Kaelber JT, Chen JZ, Ando N. Convergent allostery in ribonucleotide reductase. Nat Commun. 2019;10(1):2653.

     Not in our library10.1038/s41467-019-10568-4

304. 304.

     Thuku RN, Weber BW, Varsani A, Sewell BT. Post-translational cleavage of recombinantly expressed nitrilase from Rhodococcus rhodochrous J1 yields a stable, active helical form. FEBS J. 2007;274(8):2099-2108.

     Not in our library10.1111/j.1742-4658.2007.05752.x

305. 305.

     Thuku RN, Brady D, Benedik MJ, Sewell BT. Microbial nitrilases: versatile, spiral forming, industrial enzymes. J Appl Microbiol. 2009;106(3):703-727.

     Not in our library10.1111/j.1365-2672.2008.03941.x

306. 306.

     Tojo H, Horiike K, Shiga K, Nishina Y, Watari H, Yamano T. Self-association mode of a flavoenzyme D-amino acid oxidase from hog kidney. I. Analysis of apparent weight-average molecular weight data for the apoenzyme in terms of models. J Biol Chem. 1985;260(23):12607-12614.

     Not in our library

307. 307.

     Tojo H, Horiike K, Shiga K, Nishina Y, Watari H, Yamano T. Self-association mode of a flavoenzyme D-amino acid oxidase from hog kidney. II. Stoichiometry of holoenzyme association and energetics of subunit association. J Biol Chem. 1985;260(23):12615-12621.

     Not in our library

308. 308.

     Tomkins GM, Yielding KL, Curran JF. The influence of diethylstilbestrol and adenosine diphosphate on pyridine nucleotide coenzyme binding by glutamic dehydrogenase. J Biol Chem. 1962;237:1704-1708.

     Not in our library

309. 309.

     Tong L. Structure and function of biotin-dependent carboxylases. Cell Mol Life Sci. 2013;70(5):863-891.

     Not in our library10.1007/s00018-012-1096-0

310. 310.

     Trudel M, Van Genechten T, Meuth M. Biochemical characterization of the hamster thy mutator gene and its revertants. J Biol Chem. 1984;259(4):2355-2359.

     Not in our library

311. 311.

     Trujillo JL, Deal WC. Pig liver phosphofructokinase: asymmetry properties, proof of rapid association--dissociation equilibria, and effect of temperature and protein concentration on the equilibria. Biochemistry. 1977;16(14):3098-3104.

     Not in our library10.1021/bi00633a009

312. 312.

     Uptain SM, Lindquist S. Prions as protein-based genetic elements. Annu Rev Microbiol. 2002;56:703-741.

     Not in our library10.1146/annurev.micro.56.013002.100603

313. 313.

     Upton JP, Wang L, Han D, Wang ES, Huskey NE, Lim L, Truitt M, McManus MT, Ruggero D, Goga A, Papa FR, Oakes SA. IRE1alpha cleaves select microRNAs during ER stress to derepress translation of proapoptotic Caspase-2. Science. 2012;338(6108):818-822.

     Not in our library10.1126/science.1226191

314. 314.

     Vagelos PR, Alberts AW, Martin DB. Activation of acetyl-CoA carboxylase and associated alteration of sedimentation characteristics of the enzyme. Biochem Biophys Res Commun. 1962;8:4-8.

     Not in our library10.1016/0006-291x(62)90224-3

315. 315.

     Valero E, De Bonis S, Filhol O, Wade RH, Langowski J, Chambaz EM, Cochet C. Quaternary structure of casein kinase 2. Characterization of multiple oligomeric states and relation with its catalytic activity. J Biol Chem. 1995;270(14):8345-8352.

     Not in our library10.1074/jbc.270.14.8345

316. 316.

     Vasu K, Nagaraja V. Diverse functions of restriction-modification systems in addition to cellular defense. Microbiol Mol Biol Rev. 2013;77(1):53-72.

     Not in our library10.1128/mmbr.00044-12

317. 317.

     Vejvoda V, Kaplan O, Bezouska K, Pompach P, Sulc M, Cantarella M, Benada O, Uhnakov B, Rinagelov A, Lutz-Wahl S, Fischer L, Kren V, Martınkova L. Purification and characterization of a nitrilase from Fusarium solani O1. J Mol Catal B Enzym. 2008;50:99-106.

     Not in our library

318. 318.

     Wakil SJ, Abu-Elheiga LA. Fatty acid metabolism: target for metabolic syndrome. J Lipid Res. 2009;50(Suppl):S138-S143.

     Not in our library10.1194/jlr.r800079-jlr200

319. 319.

     Walter P, Ron D. The unfolded protein response: from stress pathway to homeostatic regulation. Science. 2011;334(6059):1081-1086.

     Not in our library10.1126/science.1209038

320. 320.

     Wang M, Kaufman RJ. Protein misfolding in the endoplasmic reticulum as a conduit to human disease. Nature. 2016;529(7586):326-335.

     Not in our library10.1038/nature17041

321. 321.

     Wang F, Eric Knabe W, Li L, Jo I, Mani T, Roehm H, Oh K, Li J, Khanna M, Meroueh SO. Design, synthesis, biochemical studies, cellular characterization, and structure-based computational studies of small molecules targeting the urokinase receptor. Bioorg Med Chem. 2012;20(15):4760-4773.

     Not in our library10.1016/j.bmc.2012.06.002

322. 322.

     Webb BA, Forouhar F, Szu FE, Seetharaman J, Tong L, Barber DL. Structures of human phosphofructokinase-1 and atomic basis of cancer-associated mutations. Nature. 2015;523(7558):111-114.

     Not in our library10.1038/nature14405

323. 323.

     Webb BA, Dosey AM, Wittmann T, Kollman JM, Barber DL. The glycolytic enzyme phosphofructokinase-1 assembles into filaments. J Cell Biol. 2017;216(8):2305-2313.

     Not in our library10.1083/jcb.201701084

324. 324.

     Werner JN, Chen EY, Guberman JM, Zippilli AR, Irgon JJ, Gitai Z. Quantitative genome-scale analysis of protein localization in an asymmetric bacterium. Proc Natl Acad Sci U S A. 2009;106(19):7858-7863.

     Not in our library10.1073/pnas.0901781106

325. 325.

     Wild K, Grafmuller R, Wagner E, Schulz GE. Structure, catalysis and supramolecular assembly of adenylate kinase from maize. Eur J Biochem. 1997;250(2):326-331.

     Not in our library10.1111/j.1432-1033.1997.0326a.x

326. 326.

     Wood ZA, Poole LB, Hantgan RR, Karplus PA. Dimers to doughnuts: redox-sensitive oligomerization of 2-cysteine peroxiredoxins. Biochemistry. 2002;41(17):5493-5504.

     Not in our library10.1021/bi012173m

327. 327.

     Wood KM, Daniels LE, Halford SE. Long-range communications between DNA sites by the dimeric restriction endonuclease SgrAI. J Mol Biol. 2005;350(2):240-253.

     Not in our library10.1016/j.jmb.2005.04.053

328. 328.

     Woodward JD, Weber BW, Scheffer MP, Benedik MJ, Hoenger A, Sewell BT. Helical structure of unidirectionally shadowed metal replicas of cyanide hydratase from Gloeocercospora sorghi. J Struct Biol. 2008;161(2):111-119.

     Not in our library10.1016/j.jsb.2007.09.019

329. 329.

     Woodward JD, Trompetter I, Sewell BT, Piotrowski M. Substrate specificity of plant nitrilase complexes is affected by their helical twist. Commun Biol. 2018;1:186.

     Not in our library10.1038/s42003-018-0186-4

330. 330.

     Wu B, Peisley A, Tetrault D, Li Z, Egelman EH, Magor KE, Walz T, Penczek PA, Hur S. Molecular imprinting as a signal-activation mechanism of the viral RNA sensor RIG-I. Mol Cell. 2014;55(4):511-523.

     Not in our library10.1016/j.molcel.2014.06.010

331. 331.
     T-cell metabolism in autoimmune disease · 2015

     No notice
332. 332.

     Yi W, Clark PM, Mason DE, Keenan MC, Hill C, Goddard WA, Peters EC, Driggers EM, Hsieh-Wilson LC. Phosphofructokinase 1 glycosylation regulates cell growth and metabolism. Science. 2012;337(6097):975-980.

     Not in our library10.1126/science.1222278

333. 333.

     Yielding KL, Tomkins GM. An effect of L-leucine and other essential amino acids on the structure and activity of glutamic dehydrogenase. Proc Natl Acad Sci U S A. 1961;47:983-989.

     Not in our library10.1073/pnas.47.7.983

334. 334.

     Yin Q, Fu TM, Li J, Wu H. Structural biology of innate immunity. Annu Rev Immunol. 2015;33:393-416.

     Not in our library10.1146/annurev-immunol-032414-112258

335. 335.

     Yoshida H, Matsui T, Yamamoto A, Okada T, Mori K. XBP1 mRNA is induced by ATF6 and spliced by IRE1 in response to ER stress to produce a highly active transcription factor. Cell. 2001;107(7):881-891.

     Not in our library10.1016/s0092-8674(01)00611-0

336. 336.

     Yu X, Jacobs SA, West SC, Ogawa T, Egelman EH. Domain structure and dynamics in the helical filaments formed by RecA and Rad51 on DNA. Proc Natl Acad Sci U S A. 2001;98(15):8419-8424.

     Not in our library10.1073/pnas.111005398

337. 337.

     Zeiri L, Reisler E. Uncoupling of the catalytic activity and the polymerization of beef liver glutamate dehydrogenase. J Mol Biol. 1978;124(1):291-295.

     Not in our library10.1016/0022-2836(78)90162-6

338. 338.

     Zeng W, Sun L, Jiang X, Chen X, Hou F, Adhikari A, Xu M, Chen ZJ. Reconstitution of the RIG-I pathway reveals a signaling role of unanchored polyubiquitin chains in innate immunity. Cell. 2010;141(2):315-330.

     Not in our library10.1016/j.cell.2010.03.029

339. 339.

     Zhang DW, Shao J, Lin J, Zhang N, Lu BJ, Lin SC, Dong MQ, Han J. RIP3, an energy metabolism regulator that switches TNF-induced cell death from apoptosis to necrosis. Science. 2009;325(5938):332-336.

     Not in our library10.1126/science.1172308

340. 340.

     Zhang S, Ding K, Shen QJ, Zhao S, Liu JL. Filamentation of asparagine synthetase in Saccharomyces cerevisiae. PLoS Genet. 2018;14(10):e1007737.

     Not in our library10.1371/journal.pgen.1007737

341. 341.

     Zhao J, Jitkaew S, Cai Z, Choksi S, Li Q, Luo J, Liu ZG. Mixed lineage kinase domain-like is a key receptor interacting protein 3 downstream component of TNF-induced necrosis. Proc Natl Acad Sci U S A. 2012;109(14):5322-5327.

     Not in our library10.1073/pnas.1200012109

342. 342.

     Zhou J, Liu CY, Back SH, Clark RL, Peisach D, Xu Z, Kaufman RJ. The crystal structure of human IRE1 luminal domain reveals a conserved dimerization interface required for activation of the unfolded protein response. Proc Natl Acad Sci U S A. 2006;103(39):14343-14348.

     Not in our library10.1073/pnas.0606480103

343. 343.

     Zimmermann AG, Gu JJ, Laliberte J, Mitchell BS. Inosine-5'-monophosphate dehydrogenase: regulation of expression and role in cellular proliferation and T lymphocyte activation. Prog Nucleic Acid Res Mol Biol. 1998;61:181-209.

     Not in our library10.1016/s0079-6603(08)60827-2

Cited by papers we hold 1

• Characterization of the Nit6803 nitrilase homolog from the cyanotroph Pseudomonas fluorescens NCIMB 11764 · 2021
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