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Elsevier BV
Journal of Structural Biology (78)
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Lupas, A. N., Ponting, C. P., & Russell, R. B. (2001). On the Evolution of Protein Folds: Are Similar Motifs in Different Protein Folds the Result of Convergence, Insertion, or Relics of an Ancient Peptide World? Journal of Structural Biology, 134(2–3), 191–203.

Authors 3
  1. Andrei N. Lupas (first)
  2. Chris P. Ponting (additional)
  3. Robert B. Russell (additional)
References 63 Referenced 255
  1. 10.1093/nar/25.17.3389 / Nucleic Acids Res. / Gapped BLAST and PSI-BLAST: A new generation of protein database search programs by Altschul (1997)
  2. 10.1006/jmbi.2000.3684 / J. Mol. Biol. / Homology-based method for identification of protein repeats using statistical significance estimates by Andrade (2000)
  3. 10.1006/jsbi.2001.4392 / J. Struct. Biol. / Protein repeats: Structures, functions and evolution by Andrade (2001)
  4. 10.1006/jmbi.2000.3837 / J. Mol. Biol. / HMMSTR: A hidden Markov model for local sequence-structure correlations in proteins by Bystroff (2000)
  5. 10.1006/jmbi.1998.1943 / J. Mol. Biol. / Prediction of local structure in proteins using a library of sequence-structure motifs by Bystroff (1998)
  6. 10.1073/pnas.96.15.8396 / Proc. Natl. Acad. Sci. USA / Crystal structure of ERA: a GTPase-dependent cell cycle regulator containing an RNA binding motif by Chen (1999)
  7. 10.1110/ps.31901 / Protein Sci. / Sialidase like asp-boxes: Sequence-similar structures within different protein folds by Copley (2001)
  8. 10.1016/S0968-0004(98)01254-7 / Trends Biochem Sci. / Catalytic triads and their relatives by Dodson (1998)
  9. 10.1093/nar/24.13.2488 / Nucleic Acids Res. / The helix-hairpin-helix DNA-binding motif: A structural basis for non-sequence-specific recognition of DNA by Doherty (1996)
  10. 10.1038/35011520 / Nature / Protein interaction maps for complete genomes based on gene fusion events by Enright (1999)
  11. 10.1016/S0092-8674(00)81190-3 / Cell / Crystal structure of the catalytic domain of the human cell cycle control phosphatase, Cdc25A by Fauman (1998)
  12. 10.1038/381059a0 / Nature / Synthesis of long prebiotic oligomers on mineral surfaces by Ferris (1996)
  13. 10.1038/344656a0 / Nature / Chloroplast DNA sequence from a miocene Magnolia species by Golenberg (1990)
  14. 10.1093/nar/29.3.638 / Nucleic Acids Res. / KH domain: One motif, two folds by Grishin (2001)
  15. 10.1006/jsbi.2001.4335 / J. Struct. Biol. / Fold change in the evolution of protein structure by Grishin (2001)
  16. 10.1073/pnas.74.2.547 / Proc. Natl. Acad. Sci. USA / Identification of the iron-sulfur center in trimethylamine dehydrogenase by Hill (1977)
  17. 10.1093/nar/27.1.215 / Nucleic Acids Res. / The PROSITE database, its status in 1999 by Hofmann (1999)
  18. {'key': '10.1006/jsbi.2001.4393_RF18', 'first-page': '140', 'article-title': 'Decision support system for the evolutionary classification of protein structures', 'volume': '5', 'author': 'Holm', 'year': '1997', 'journal-title': 'Proc. Int. Conf. Intell. Syst. Mol. Biol.'} / Proc. Int. Conf. Intell. Syst. Mol. Biol. / Decision support system for the evolutionary classification of protein structures by Holm (1997)
  19. 10.1093/nar/29.1.346 / Nucleic Acids Res. / Collecting and harvesting biological data: The GPCRDB and NucleaRDB information systems by Horn (2001)
  20. 10.1038/35057062 / Nature (2001)
  21. 10.1006/jmbi.1999.3389 / J. Mol. Biol. / The serine protease inhibitor canonical loop conformation: Examples found in extracellular hydrolases, toxins, cytokines and viral proteins by Jackson (2000)
  22. 10.1046/j.1365-2958.1999.01553.x / Mol. Microbiol. / The widely conserved Era G-protein contains an RNA-binding domain required for Era function in vivo by Johnstone (1999)
  23. 10.1006/jsbi.2000.4328 / J. Struct. Biol. / Proteins with repeated sequences: Structural prediction and modeling by Kajava (2001)
  24. Keller, M., Blochl, E., Wachetershauser, G., and Stetter, K. O.1994Formation of amide bonds without a condensation agent and implications for the origin of life, 368, 836–838.
  25. 10.1093/oxfordjournals.molbev.a026297 / Mol. Biol. Evol. / Evolution of two-component signal transduction by Koretke (2000)
  26. 10.1107/S0021889891004399 / J. Appl. Crystallogr. / MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures by Kraulis (1991)
  27. 10.1006/jmbi.1999.3136 / J. Mol. Biol. / A census of protein repeats by Marcotte (1999)
  28. 10.1038/47048 / Nature / A combined algorithm for genome-wide prediction of protein function by Marcotte (1999)
  29. 10.1016/0079-6107(85)90004-5 / Prog. Biophys. Mol. Biol. / The structure, function and evolution of cytochromes by Mathews (1985)
  30. 10.1002/(SICI)1097-0134(19990401)35:1<70::AID-PROT7>3.0.CO;2-9 / Proteins / Identification of homologous core structures by Matsuo (1999)
  31. 10.1016/0022-2836(72)90508-6 / J. Mol. Biol. / Repeating sequences and gene duplication in proteins by McLachlan (1972)
  32. 10.1002/prot.340140206 / Proteins / Structural principles for the propeller assembly of beta-sheets: The preference for seven-fold symmetry by Murzin (1992)
  33. 10.1006/jmbi.1993.1186 / J. Mol. Biol. / Sweet-tasting protein monellin is related to the cystatin family of thiol proteinase inhibitors by Murzin (1993)
  34. 10.1038/nsb0195-25 / Nature Struct Biol. / A ribosomal protein module in EF-G and DNA gyrase by Murzin (1995)
  35. 10.1016/0022-2836(92)90668-A / J. Mol. Biol. / β-Trefoil fold: Patterns of structure and sequence in the Kunitz inhibitors interleukins-1 beta and 1 alpha and fibroblast growth factors by Murzin (1992)
  36. 10.1016/S0022-2836(05)80134-2 / J. Mol. Biol. / SCOP: A structural classification of proteins database for the investigation of sequences and structures by Murzin (1995)
  37. 10.1038/20601 / Nature / Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima by Nelson (1999)
  38. {'key': '10.1006/jsbi.2001.4393_RF38', 'series-title': 'Evolution by Gene Duplication', 'author': 'Ohno', 'year': '1970'} / Evolution by Gene Duplication by Ohno (1970)
  39. 10.1021/bi992267k / Biochemistry / Identification of residues involved in the interaction of Staphylococcus aureus fibronectin-binding protein with the 4F15F1 module pair of human fibronectin using heteronuclear NMR spectroscopy by Penkett (2000)
  40. 10.1038/scientificamerican1193-86 / Sci. Am. / Ancient DNA by Pabo (1993)
  41. 10.1006/jmbi.2000.4087 / J. Mol. Biol. / Identification of distant homologues of fibroblast growth factors suggests a common ancestor for all beta-trefoil proteins by Ponting (2000)
  42. 10.1006/jmbi.1999.2827 / J. Mol. Biol. / Eukaryotic signalling domain homologues in archaea and bacteria. Ancient ancestry and horizontal gene transfer by Ponting (1999)
  43. 10.1016/S0968-0004(00)89003-9 / Trends Biochem. Sci. / Swaposins: Circular permutations within genes encoding saposin homologues by Ponting (1995)
  44. 10.1042/0264-6021:3390223 / Biochem. J. / Identification of the Mg2+-binding site in the P-type ATPase and phosphatase members of the HAD (haloacid dehalogenase) superfamily by structural similarity to the response regulator protein CheY by Ridder (1999)
  45. 10.1074/jbc.273.29.18067 / J. Biol. Chem. / The Cdc42/Rac interactive binding region motif of the Wiskott Aldrich syndrome protein (WASP) is necessary but not sufficient for tight binding to Cdc42 and structure formation by Rudolph (1998)
  46. 10.1038/35035069 / Nature / The genome sequence of the thermoacidophilic scavenger Thermoplasma acidophilum by Ruepp (2000)
  47. 10.1006/jmbi.1998.1844 / J. Mol. Biol. / Detection of protein three-dimensional side-chain patterns: New examples of convergent evolution by Russell (1998)
  48. 10.1093/protein/7.12.1407 / Protein Eng. / Domain insertion by Russell (1994)
  49. 10.1006/jmbi.1997.1019 / J. Mol. Biol. / Recognition of analogous and homologous protein folds: Analysis of sequence and structure conservation by Russell (1997)
  50. 10.1016/S0959-440X(98)80071-7 / Curr. Opin. Struct. Biol. / Protein fold irregularities that hinder sequence analysis by Russell (1998)
  51. 10.1016/0968-0004(90)90281-F / Trends Biochem. Sci. / The P-loop—A common motif in ATP- and GTP-binding proteins by Saraste (1990)
  52. {'key': '10.1006/jsbi.2001.4393_RF52', 'first-page': '333', 'article-title': 'Linguistic approaches to biological sequences', 'volume': '13', 'author': 'Searls', 'year': '1997', 'journal-title': 'Comput. Appl. Biosci.'} / Comput. Appl. Biosci. / Linguistic approaches to biological sequences by Searls (1997)
  53. 10.1002/(SICI)1097-0134(19990101)34:1<82::AID-PROT7>3.0.CO;2-A / Proteins / Improved recognition of native-like protein structures using a combination of sequence-dependent and sequence-independent features of proteins by Simmons (1999)
  54. 10.1016/S0021-9258(19)41819-X / J. Biol. Chem. / Reconstitution of Escherichia coli thioredoxin from complementing peptide fragments obtained by cleavage at methionine-37 or arginine-73 by Slaby (1975)
  55. 10.1038/379369a0 / Nature / Crystal structure of a G-protein bg dimer at 2.1Å resolution by Sondek (1996)
  56. 10.1042/bj1690361 / Biochem. J. / Participation of the iron-sulphur cluster and of the covalently bound coenzyme of trimethylamine dehydrogenase in catalysis by Steenkamp (1978)
  57. 10.1002/pro.5560021214 / Protein Sci. / Classification of doubly wound nucleotide binding topologies using automated loop searches by Swindells (1993)
  58. 10.1038/nsb0794-421 / Nature Struct. Biol. / Loopy similarities by Swindells (1994)
  59. 10.1038/35038060 / Nature / Isolation of a 250-million-year-old halotolerant bacterium from a primary salt crystal by Vreeland (2000)
  60. 10.1002/j.1460-2075.1982.tb01276.x / EMBO J. / Distantly related sequences in the alpha- and beta-subunits of ATP synthase, myosin, kinases and other ATP-requiring enzymes and a common nucleotide binding fold by Walker (1982)
  61. 10.1002/pro.5560061104 / Protein Sci. / TESS: A geometric hashing algorithm for deriving 3D coordinate templates for searching structural databases. Application to enzyme active sites by Wallace (1997)
  62. 10.1002/pro.5560050603 / Protein Sci. / Derivation of 3D coordinate templates for searching structural databases: Application to Ser-His-Asp catalytic triads in the serine proteinases and lipases by Wallace (1996)
  63. 10.1002/pro.5560030301 / Protein Sci. / Autonomous subdomains in protein folding by Wu (1994)
Dates
Type When
Created 22 years, 11 months ago (Sept. 18, 2002, 2:57 p.m.)
Deposited 4 years, 4 months ago (May 3, 2021, 12:31 a.m.)
Indexed 5 days ago (Aug. 31, 2025, 6:10 a.m.)
Issued 24 years, 4 months ago (May 1, 2001)
Published 24 years, 4 months ago (May 1, 2001)
Published Print 24 years, 4 months ago (May 1, 2001)
Funders 0

None

@article{Lupas_2001, title={On the Evolution of Protein Folds: Are Similar Motifs in Different Protein Folds the Result of Convergence, Insertion, or Relics of an Ancient Peptide World?}, volume={134}, ISSN={1047-8477}, url={http://dx.doi.org/10.1006/jsbi.2001.4393}, DOI={10.1006/jsbi.2001.4393}, number={2–3}, journal={Journal of Structural Biology}, publisher={Elsevier BV}, author={Lupas, Andrei N. and Ponting, Chris P. and Russell, Robert B.}, year={2001}, month=may, pages={191–203} }