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For: Copley RR, Bork P. Homology among (betaalpha)(8) barrels: implications for the evolution of metabolic pathways. J Mol Biol 2000;303:627-41. [PMID: 11054297 DOI: 10.1006/jmbi.2000.4152] [Citation(s) in RCA: 163] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Number Cited by Other Article(s)
51
Wagner A. The low cost of recombination in creating novel phenotypes: Recombination can create new phenotypes while disrupting well-adapted phenotypes much less than mutation. Bioessays 2011;33:636-46. [PMID: 21633964 DOI: 10.1002/bies.201100027] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
52
Structural and functional energetic linkages in allosteric regulation of muscle pyruvate kinase. Methods Enzymol 2011. [PMID: 21195229 DOI: 10.1016/b978-0-12-381268-1.00008-2] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
53
Ullrich A, Rohrschneider M, Scheuermann G, Stadler PF, Flamm C. In silico evolution of early metabolism. ARTIFICIAL LIFE 2011;17:87-108. [PMID: 21370961 DOI: 10.1162/artl_a_00021] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
54
Doud EH, Perlstein DL, Wolpert M, Cane DE, Walker S. Two distinct mechanisms for TIM barrel prenyltransferases in bacteria. J Am Chem Soc 2011;133:1270-3. [PMID: 21214173 PMCID: PMC3033458 DOI: 10.1021/ja109578b] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
55
Bernhardsson S, Gerlee P, Lizana L. Structural correlations in bacterial metabolic networks. BMC Evol Biol 2011;11:20. [PMID: 21251250 PMCID: PMC3033826 DOI: 10.1186/1471-2148-11-20] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2010] [Accepted: 01/20/2011] [Indexed: 11/22/2022]  Open
56
Wierenga RK, Kapetaniou EG, Venkatesan R. Triosephosphate isomerase: a highly evolved biocatalyst. Cell Mol Life Sci 2010;67:3961-82. [PMID: 20694739 PMCID: PMC11115733 DOI: 10.1007/s00018-010-0473-9] [Citation(s) in RCA: 165] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2010] [Revised: 07/15/2010] [Accepted: 07/16/2010] [Indexed: 02/04/2023]
57
Hung CL, Lee C, Lin CY, Chang CH, Chung YC, Yi Tang C. Feature amplified voting algorithm for functional analysis of protein superfamily. BMC Genomics 2010;11 Suppl 3:S14. [PMID: 21143781 PMCID: PMC2999344 DOI: 10.1186/1471-2164-11-s3-s14] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]  Open
58
Lee M, Gräwert T, Quitterer F, Rohdich F, Eppinger J, Eisenreich W, Bacher A, Groll M. Biosynthesis of isoprenoids: crystal structure of the [4Fe-4S] cluster protein IspG. J Mol Biol 2010;404:600-10. [PMID: 20932974 DOI: 10.1016/j.jmb.2010.09.050] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2010] [Revised: 09/17/2010] [Accepted: 09/21/2010] [Indexed: 11/24/2022]
59
Wang M, Jiang YY, Kim KM, Qu G, Ji HF, Mittenthal JE, Zhang HY, Caetano-Anollés G. A universal molecular clock of protein folds and its power in tracing the early history of aerobic metabolism and planet oxygenation. Mol Biol Evol 2010;28:567-82. [PMID: 20805191 DOI: 10.1093/molbev/msq232] [Citation(s) in RCA: 104] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]  Open
60
Glasner ME, Gerlt JA, Babbitt PC. Mechanisms of protein evolution and their application to protein engineering. ADVANCES IN ENZYMOLOGY AND RELATED AREAS OF MOLECULAR BIOLOGY 2010;75:193-239, xii-xiii. [PMID: 17124868 DOI: 10.1002/9780471224464.ch3] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
61
Alva V, Remmert M, Biegert A, Lupas AN, Söding J. A galaxy of folds. Protein Sci 2010;19:124-30. [PMID: 19937658 DOI: 10.1002/pro.297] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
62
Opperman DJ, Sewell BT, Litthauer D, Isupov MN, Littlechild JA, van Heerden E. Crystal structure of a thermostable old yellow enzyme from Thermus scotoductus SA-01. Biochem Biophys Res Commun 2010;393:426-31. [PMID: 20138824 DOI: 10.1016/j.bbrc.2010.02.011] [Citation(s) in RCA: 66] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2010] [Accepted: 02/03/2010] [Indexed: 11/20/2022]
63
Evolution of biomolecular networks: lessons from metabolic and protein interactions. Nat Rev Mol Cell Biol 2009;10:791-803. [PMID: 19851337 DOI: 10.1038/nrm2787] [Citation(s) in RCA: 148] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
64
Herman P, Lee JC. Functional energetic landscape in the allosteric regulation of muscle pyruvate kinase. 1. Calorimetric study. Biochemistry 2009;48:9448-55. [PMID: 19719244 PMCID: PMC2759577 DOI: 10.1021/bi900279x] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
65
Kim BH, Cheng H, Grishin NV. HorA web server to infer homology between proteins using sequence and structural similarity. Nucleic Acids Res 2009;37:W532-8. [PMID: 19417074 PMCID: PMC2703895 DOI: 10.1093/nar/gkp328] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]  Open
66
Masters M, Blakely G, Coulson A, McLennan N, Yerko V, Acord J. Protein folding in Escherichia coli: the chaperonin GroE and its substrates. Res Microbiol 2009;160:267-77. [PMID: 19393741 DOI: 10.1016/j.resmic.2009.04.002] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2009] [Revised: 04/02/2009] [Accepted: 04/10/2009] [Indexed: 10/20/2022]
67
Fani R, Fondi M. Origin and evolution of metabolic pathways. Phys Life Rev 2009;6:23-52. [PMID: 20416849 DOI: 10.1016/j.plrev.2008.12.003] [Citation(s) in RCA: 86] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2008] [Revised: 11/27/2008] [Accepted: 12/01/2008] [Indexed: 10/21/2022]
68
An enzymatic atavist revealed in dual pathways for water activation. PLoS Biol 2008;6:e206. [PMID: 18752347 PMCID: PMC2525682 DOI: 10.1371/journal.pbio.0060206] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2007] [Accepted: 07/15/2008] [Indexed: 11/21/2022]  Open
69
Experimental Evidence for the Existence of a Stable Half-Barrel Subdomain in the (β/α)8-Barrel Fold. J Mol Biol 2008;382:458-66. [DOI: 10.1016/j.jmb.2008.07.040] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2008] [Revised: 07/14/2008] [Accepted: 07/16/2008] [Indexed: 11/16/2022]
70
Caetano-Anollés G, Yafremava LS, Gee H, Caetano-Anollés D, Kim HS, Mittenthal JE. The origin and evolution of modern metabolism. Int J Biochem Cell Biol 2008;41:285-97. [PMID: 18790074 DOI: 10.1016/j.biocel.2008.08.022] [Citation(s) in RCA: 80] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2008] [Revised: 08/09/2008] [Accepted: 08/11/2008] [Indexed: 10/21/2022]
71
Lee JC. Modulation of allostery of pyruvate kinase by shifting of an ensemble of microstates. Acta Biochim Biophys Sin (Shanghai) 2008;40:663-9. [PMID: 18604458 PMCID: PMC2562701 DOI: 10.1111/j.1745-7270.2008.00445.x] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]  Open
72
Chaudhuri I, Söding J, Lupas AN. Evolution of the beta-propeller fold. Proteins 2008;71:795-803. [PMID: 17979191 DOI: 10.1002/prot.21764] [Citation(s) in RCA: 117] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
73
Cheng H, Kim BH, Grishin NV. Discrimination between distant homologs and structural analogs: lessons from manually constructed, reliable data sets. J Mol Biol 2008;377:1265-78. [PMID: 18313074 PMCID: PMC4494761 DOI: 10.1016/j.jmb.2007.12.076] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2007] [Accepted: 12/20/2007] [Indexed: 10/22/2022]
74
Cheng H, Kim BH, Grishin NV. MALISAM: a database of structurally analogous motifs in proteins. Nucleic Acids Res 2007;36:D211-7. [PMID: 17855399 PMCID: PMC2238938 DOI: 10.1093/nar/gkm698] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]  Open
75
Caetano-Anollés G, Kim HS, Mittenthal JE. The origin of modern metabolic networks inferred from phylogenomic analysis of protein architecture. Proc Natl Acad Sci U S A 2007;104:9358-63. [PMID: 17517598 PMCID: PMC1890499 DOI: 10.1073/pnas.0701214104] [Citation(s) in RCA: 118] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
76
Madej T, Panchenko AR, Chen J, Bryant SH. Protein homologous cores and loops: important clues to evolutionary relationships between structurally similar proteins. BMC STRUCTURAL BIOLOGY 2007;7:23. [PMID: 17425794 PMCID: PMC1852803 DOI: 10.1186/1472-6807-7-23] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/13/2006] [Accepted: 04/10/2007] [Indexed: 11/11/2022]
77
Söding J, Remmert M, Biegert A. HHrep: de novo protein repeat detection and the origin of TIM barrels. Nucleic Acids Res 2006;34:W137-42. [PMID: 16844977 PMCID: PMC1538828 DOI: 10.1093/nar/gkl130] [Citation(s) in RCA: 58] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
78
Kim HS, Mittenthal JE, Caetano-Anollés G. MANET: tracing evolution of protein architecture in metabolic networks. BMC Bioinformatics 2006;7:351. [PMID: 16854231 PMCID: PMC1559654 DOI: 10.1186/1471-2105-7-351] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2006] [Accepted: 07/19/2006] [Indexed: 11/13/2022]  Open
79
Panchenko AR, Wolf YI, Panchenko LA, Madej T. Evolutionary plasticity of protein families: coupling between sequence and structure variation. Proteins 2006;61:535-44. [PMID: 16184609 PMCID: PMC1941674 DOI: 10.1002/prot.20644] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
80
Stengl B, Reuter K, Klebe G. Mechanism and substrate specificity of tRNA-guanine transglycosylases (TGTs): tRNA-modifying enzymes from the three different kingdoms of life share a common catalytic mechanism. Chembiochem 2006;6:1926-39. [PMID: 16206323 DOI: 10.1002/cbic.200500063] [Citation(s) in RCA: 61] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
81
Gold ND, Jackson RM. Fold Independent Structural Comparisons of Protein–Ligand Binding Sites for Exploring Functional Relationships. J Mol Biol 2006;355:1112-24. [PMID: 16359705 DOI: 10.1016/j.jmb.2005.11.044] [Citation(s) in RCA: 80] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2005] [Revised: 11/11/2005] [Accepted: 11/15/2005] [Indexed: 11/23/2022]
82
Vesterstrøm J, Taylor WR. Flexible secondary structure based protein structure comparison applied to the detection of circular permutation. J Comput Biol 2006;13:43-63. [PMID: 16472021 DOI: 10.1089/cmb.2006.13.43] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
83
Sandhya S, Chakrabarti S, Abhinandan KR, Sowdhamini R, Srinivasan N. Assessment of a rigorous transitive profile based search method to detect remotely similar proteins. J Biomol Struct Dyn 2005;23:283-98. [PMID: 16218755 DOI: 10.1080/07391102.2005.10507066] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
84
Saab-Rincón G, Mancera E, Montero-Morán G, Sánchez F, Soberón X. Generation of variability by in vivo recombination of halves of a (beta/alpha)8 barrel protein. ACTA ACUST UNITED AC 2005;22:113-20. [PMID: 16125117 DOI: 10.1016/j.bioeng.2005.01.002] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2004] [Revised: 12/25/2004] [Accepted: 01/18/2005] [Indexed: 11/26/2022]
85
Sterner R, Höcker B. Catalytic Versatility, Stability, and Evolution of the (βα)8-Barrel Enzyme Fold. Chem Rev 2005;105:4038-55. [PMID: 16277370 DOI: 10.1021/cr030191z] [Citation(s) in RCA: 166] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
86
Analysis of protein homology by assessing the (dis)similarity in protein loop regions. Proteins 2005;57:539-47. [PMID: 15382231 DOI: 10.1002/prot.20237] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
87
Kozbial PZ, Mushegian AR. Natural history of S-adenosylmethionine-binding proteins. BMC STRUCTURAL BIOLOGY 2005;5:19. [PMID: 16225687 PMCID: PMC1282579 DOI: 10.1186/1472-6807-5-19] [Citation(s) in RCA: 218] [Impact Index Per Article: 10.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/21/2005] [Accepted: 10/14/2005] [Indexed: 11/10/2022]
88
Livesay DR, La D. The evolutionary origins and catalytic importance of conserved electrostatic networks within TIM-barrel proteins. Protein Sci 2005;14:1158-70. [PMID: 15840824 PMCID: PMC2253277 DOI: 10.1110/ps.041221105] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
89
Pfeiffer T, Soyer OS, Bonhoeffer S. The evolution of connectivity in metabolic networks. PLoS Biol 2005;3:e228. [PMID: 16000019 PMCID: PMC1157096 DOI: 10.1371/journal.pbio.0030228] [Citation(s) in RCA: 98] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2004] [Accepted: 04/26/2005] [Indexed: 11/24/2022]  Open
90
Höcker B. Directed evolution of (βα)8-barrel enzymes. ACTA ACUST UNITED AC 2005;22:31-8. [PMID: 15857781 DOI: 10.1016/j.bioeng.2004.09.005] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2004] [Revised: 09/23/2004] [Accepted: 09/24/2004] [Indexed: 10/25/2022]
91
Ronimus RS, Morgan HW. Distribution and phylogenies of enzymes of the Embden-Meyerhof-Parnas pathway from archaea and hyperthermophilic bacteria support a gluconeogenic origin of metabolism. ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL 2005;1:199-221. [PMID: 15803666 PMCID: PMC2685568 DOI: 10.1155/2003/162593] [Citation(s) in RCA: 84] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
92
Caetano-Anollés G, Caetano-Anollés D. Universal Sharing Patterns in Proteomes and Evolution of Protein Fold Architecture and Life. J Mol Evol 2005;60:484-98. [PMID: 15883883 DOI: 10.1007/s00239-004-0221-6] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2004] [Accepted: 10/11/2004] [Indexed: 11/30/2022]
93
Van Lanen SG, Reader JS, Swairjo MA, de Crécy-Lagard V, Lee B, Iwata-Reuyl D. From cyclohydrolase to oxidoreductase: discovery of nitrile reductase activity in a common fold. Proc Natl Acad Sci U S A 2005;102:4264-9. [PMID: 15767583 PMCID: PMC555470 DOI: 10.1073/pnas.0408056102] [Citation(s) in RCA: 92] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2004] [Indexed: 11/18/2022]  Open
94
Marland E, Prachumwat A, Maltsev N, Gu Z, Li WH. Higher gene duplicabilities for metabolic proteins than for nonmetabolic proteins in yeast and E. coli. J Mol Evol 2005;59:806-14. [PMID: 15599512 DOI: 10.1007/s00239-004-0068-x] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2004] [Accepted: 06/29/2004] [Indexed: 10/26/2022]
95
Huynen MA, Gabaldón T, Snel B. Variation and evolution of biomolecular systems: Searching for functional relevance. FEBS Lett 2005;579:1839-45. [PMID: 15763561 DOI: 10.1016/j.febslet.2005.02.004] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2005] [Revised: 01/18/2005] [Accepted: 02/01/2005] [Indexed: 11/29/2022]
96
Zientz E, Dandekar T, Gross R. Metabolic interdependence of obligate intracellular bacteria and their insect hosts. Microbiol Mol Biol Rev 2005;68:745-70. [PMID: 15590782 PMCID: PMC539007 DOI: 10.1128/mmbr.68.4.745-770.2004] [Citation(s) in RCA: 215] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]  Open
97
Stevens FJ. Efficient recognition of protein fold at low sequence identity by conservative application of Psi-BLAST: validation. J Mol Recognit 2005;18:139-49. [PMID: 15558595 DOI: 10.1002/jmr.721] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
98
Heine A, Luz JG, Wong CH, Wilson IA. Analysis of the class I aldolase binding site architecture based on the crystal structure of 2-deoxyribose-5-phosphate aldolase at 0.99A resolution. J Mol Biol 2004;343:1019-34. [PMID: 15476818 DOI: 10.1016/j.jmb.2004.08.066] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2004] [Revised: 08/18/2004] [Accepted: 08/20/2004] [Indexed: 11/17/2022]
99
Gough J. Convergent evolution of domain architectures (is rare). Bioinformatics 2004;21:1464-71. [PMID: 15585523 DOI: 10.1093/bioinformatics/bti204] [Citation(s) in RCA: 119] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
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Höcker B, Claren J, Sterner R. Mimicking enzyme evolution by generating new (betaalpha)8-barrels from (betaalpha)4-half-barrels. Proc Natl Acad Sci U S A 2004;101:16448-53. [PMID: 15539462 PMCID: PMC534502 DOI: 10.1073/pnas.0405832101] [Citation(s) in RCA: 86] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
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