Protein domain (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "Protein domain" in English language version.

refsWebsite

Global rank English rank

104nih.gov

4^th place

78doi.org

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25harvard.edu

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19semanticscholar.org

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3web.archive.org

1^st place

3psu.edu

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1duke.edu

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1proteinstructures.com

low place

1worldcat.org

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1pdb.org

low place

1embl.de

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1wisc.edu

1,045^th place

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1bbk.ac.uk

low place

7,925^th place

bbk.ac.uk

eprints.bbk.ac.uk

Pandurangan AP, Topf M (September 2012). "RIBFIND: a web server for identifying rigid bodies in protein structures and to aid flexible fitting into cryo EM maps" (PDF). Bioinformatics. 28 (18): 2391–3. doi:10.1093/bioinformatics/bts446. PMID 22796953.

doi.org

Xu D, Nussinov R (1 February 1998). "Favorable domain size in proteins". Folding & Design. 3 (1): 11–7. doi:10.1016/S1359-0278(98)00004-2. PMID 9502316.
Phillips DC (November 1966). "The three-dimensional structure of an enzyme molecule". Scientific American. 215 (5): 78–90. Bibcode:1966SciAm.215e..78P. doi:10.1038/scientificamerican1166-78. PMID 5978599. S2CID 39959172.
Drenth J, Jansonius JN, Koekoek R, Swen HM, Wolthers BG (June 1968). "Structure of papain". Nature. 218 (5145): 929–32. Bibcode:1968Natur.218..929D. doi:10.1038/218929a0. PMID 5681232. S2CID 4169127.
Porter RR (May 1973). "Structural studies of immunoglobulins". Science. 180 (4087): 713–6. Bibcode:1973Sci...180..713P. doi:10.1126/science.180.4087.713. PMID 4122075.
Edelman GM (May 1973). "Antibody structure and molecular immunology". Science. 180 (4088): 830–40. Bibcode:1973Sci...180..830E. doi:10.1126/science.180.4088.830. PMID 4540988.
Richardson JS (1981). "The anatomy and taxonomy of protein structure". Advances in Protein Chemistry. 34: 167–339. doi:10.1016/S0065-3233(08)60520-3. ISBN 9780120342341. PMID 7020376. Archived from the original on 10 February 2019. Retrieved 3 January 2009.
Bork P (July 1991). "Shuffled domains in extracellular proteins". FEBS Letters. 286 (1–2): 47–54. Bibcode:1991FEBSL.286...47B. doi:10.1016/0014-5793(91)80937-X. PMID 1864378. S2CID 22126481.
Wetlaufer DB (March 1973). "Nucleation, rapid folding, and globular intrachain regions in proteins". Proceedings of the National Academy of Sciences of the United States of America. 70 (3): 697–701. Bibcode:1973PNAS...70..697W. doi:10.1073/pnas.70.3.697. PMC 433338. PMID 4351801.
Chothia C (June 1992). "Proteins. One thousand families for the molecular biologist". Nature. 357 (6379): 543–4. Bibcode:1992Natur.357..543C. doi:10.1038/357543a0. PMID 1608464. S2CID 4355476.
Bakszt R, Wernimont A, Allali-Hassani A, Mok MW, Hills T, Hui R, Pizarro JC (September 2010). "The crystal structure of Toxoplasma gondii pyruvate kinase 1". PLOS ONE. 5 (9): e12736. Bibcode:2010PLoSO...512736B. doi:10.1371/journal.pone.0012736. PMC 2939071. PMID 20856875.
George RA, Heringa J (November 2002). "An analysis of protein domain linkers: their classification and role in protein folding". Protein Engineering. 15 (11): 871–9. doi:10.1093/protein/15.11.871. PMID 12538906.
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Banner DW, Bloomer AC, Petsko GA, Phillips DC, Pogson CI, Wilson IA, et al. (June 1975). "Structure of chicken muscle triose phosphate isomerase determined crystallographically at 2.5 angstrom resolution using amino acid sequence data". Nature. 255 (5510): 609–14. Bibcode:1975Natur.255..609B. doi:10.1038/255609a0. PMID 1134550. S2CID 4195346.
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Copley RR, Bork P (November 2000). "Homology among (betaalpha)(8) barrels: implications for the evolution of metabolic pathways". Journal of Molecular Biology. 303 (4): 627–41. doi:10.1006/jmbi.2000.4152. PMID 11054297.
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Jones S, Stewart M, Michie A, Swindells MB, Orengo C, Thornton JM (February 1998). "Domain assignment for protein structures using a consensus approach: characterization and analysis". Protein Science. 7 (2): 233–42. doi:10.1002/pro.5560070202. PMC 2143930. PMID 9521098.
Holm L, Sander C (July 1994). "Parser for protein folding units". Proteins. 19 (3): 256–68. doi:10.1002/prot.340190309. PMID 7937738. S2CID 525264.
Anfinsen CB, Haber E, Sela M, White FH (September 1961). "The kinetics of formation of native ribonuclease during oxidation of the reduced polypeptide chain". Proceedings of the National Academy of Sciences of the United States of America. 47 (9): 1309–14. Bibcode:1961PNAS...47.1309A. doi:10.1073/pnas.47.9.1309. PMC 223141. PMID 13683522.
Cordes MH, Davidson AR, Sauer RT (February 1996). "Sequence space, folding and protein design". Current Opinion in Structural Biology. 6 (1): 3–10. doi:10.1016/S0959-440X(96)80088-1. PMID 8696970.
Ostermeier M, Benkovic SJ (2000). "Evolution of protein function by domain swapping". Evolutionary Protein Design. Advances in Protein Chemistry. Vol. 55. pp. 29–77. doi:10.1016/s0065-3233(01)55002-0. ISBN 9780120342556. PMID 11050932. {{cite book}}: |journal= ignored (help)
Zhou Y, Vitkup D, Karplus M (January 1999). "Native proteins are surface-molten solids: application of the Lindemann criterion for the solid versus liquid state". Journal of Molecular Biology. 285 (4): 1371–5. doi:10.1006/jmbi.1998.2374. PMID 9917381. S2CID 8702994.
Levitt M, Chothia C (June 1976). "Structural patterns in globular proteins". Nature. 261 (5561): 552–8. Bibcode:1976Natur.261..552L. doi:10.1038/261552a0. PMID 934293. S2CID 4154884.
Hutchinson EG, Thornton JM (April 1993). "The Greek key motif: extraction, classification and analysis". Protein Engineering. 6 (3): 233–45. doi:10.1093/protein/6.3.233. PMID 8506258.
Savageau MA (March 1986). "Proteins of Escherichia coli come in sizes that are multiples of 14 kDa: domain concepts and evolutionary implications". Proceedings of the National Academy of Sciences of the United States of America. 83 (5): 1198–202. Bibcode:1986PNAS...83.1198S. doi:10.1073/pnas.83.5.1198. PMC 323042. PMID 3513170.
Islam SA, Luo J, Sternberg MJ (June 1995). "Identification and analysis of domains in proteins". Protein Engineering. 8 (6): 513–25. doi:10.1093/protein/8.6.513. PMID 8532675.
Wheelan SJ, Marchler-Bauer A, Bryant SH (July 2000). "Domain size distributions can predict domain boundaries". Bioinformatics. 16 (7): 613–8. doi:10.1093/bioinformatics/16.7.613. PMID 11038331.
Bennett MJ, Schlunegger MP, Eisenberg D (December 1995). "3D domain swapping: a mechanism for oligomer assembly". Protein Science. 4 (12): 2455–68. doi:10.1002/pro.5560041202. PMC 2143041. PMID 8580836.
Heringa J, Taylor WR (June 1997). "Three-dimensional domain duplication, swapping and stealing". Current Opinion in Structural Biology. 7 (3): 416–21. doi:10.1016/S0959-440X(97)80060-7. PMID 9204285.
Jacob F (June 1977). "Evolution and tinkering". Science. 196 (4295): 1161–6. Bibcode:1977Sci...196.1161J. doi:10.1126/science.860134. PMID 860134. S2CID 29756896.
Ren S, Yang G, He Y, Wang Y, Li Y, Chen Z (October 2008). "The conservation pattern of short linear motifs is highly correlated with the function of interacting protein domains". BMC Genomics. 9: 452. doi:10.1186/1471-2164-9-452. PMC 2576256. PMID 18828911.
Campbell ID, Downing AK (May 1994). "Building protein structure and function from modular units". Trends in Biotechnology. 12 (5): 168–72. doi:10.1016/0167-7799(94)90078-7. PMID 7764899.
Orengo CA, Jones DT, Thornton JM (December 1994). "Protein superfamilies and domain superfolds". Nature. 372 (6507): 631–4. Bibcode:1994Natur.372..631O. doi:10.1038/372631a0. PMID 7990952. S2CID 4330359.
Apic G, Gough J, Teichmann SA (July 2001). "Domain combinations in archaeal, eubacterial and eukaryotic proteomes". Journal of Molecular Biology. 310 (2): 311–25. doi:10.1006/jmbi.2001.4776. PMID 11428892. S2CID 11894663.
Ekman D, Björklund AK, Frey-Skött J, Elofsson A (April 2005). "Multi-domain proteins in the three kingdoms of life: orphan domains and other unassigned regions". Journal of Molecular Biology. 348 (1): 231–43. doi:10.1016/j.jmb.2005.02.007. PMID 15808866.
Davidson JN, Chen KC, Jamison RS, Musmanno LA, Kern CB (March 1993). "The evolutionary history of the first three enzymes in pyrimidine biosynthesis". BioEssays. 15 (3): 157–64. doi:10.1002/bies.950150303. PMID 8098212. S2CID 24897614.
Henikoff S, Greene EA, Pietrokovski S, Bork P, Attwood TK, Hood L (October 1997). "Gene families: the taxonomy of protein paralogs and chimeras". Science. 278 (5338): 609–14. Bibcode:1997Sci...278..609H. CiteSeerX 10.1.1.562.2262. doi:10.1126/science.278.5338.609. PMID 9381171.
Walker WP, Aradhya S, Hu CL, Shen S, Zhang W, Azarani A, et al. (December 2007). "Genetic analysis of attractin homologs". Genesis. 45 (12): 744–56. doi:10.1002/dvg.20351. PMID 18064672. S2CID 20878849.
Bork P, Doolittle RF (October 1992). "Proposed acquisition of an animal protein domain by bacteria". Proceedings of the National Academy of Sciences of the United States of America. 89 (19): 8990–4. Bibcode:1992PNAS...89.8990B. doi:10.1073/pnas.89.19.8990. PMC 50050. PMID 1409594.
Heringa J (June 1998). "Detection of internal repeats: how common are they?". Current Opinion in Structural Biology. 8 (3): 338–45. doi:10.1016/S0959-440X(98)80068-7. PMID 9666330.
Politou AS, Gautel M, Improta S, Vangelista L, Pastore A (February 1996). "The elastic I-band region of titin is assembled in a "modular" fashion by weakly interacting Ig-like domains". Journal of Molecular Biology. 255 (4): 604–16. doi:10.1006/jmbi.1996.0050. PMID 8568900.
McLachlan AD (February 1979). "Gene duplications in the structural evolution of chymotrypsin". Journal of Molecular Biology. 128 (1): 49–79. doi:10.1016/0022-2836(79)90308-5. PMID 430571.
Moore JD, Endow SA (March 1996). "Kinesin proteins: a phylum of motors for microtubule-based motility". BioEssays. 18 (3): 207–19. doi:10.1002/bies.950180308. PMID 8867735. S2CID 46012215.
Russell RB (December 1994). "Domain insertion". Protein Engineering. 7 (12): 1407–10. doi:10.1093/protein/7.12.1407. PMID 7716150.
Haynie DT, Xue B (May 2015). "Superdomains in the protein structure hierarchy: The case of PTP-C2". Protein Science. 24 (5): 874–82. doi:10.1002/pro.2664. PMC 4420535. PMID 25694109.
Levinthal C (1968). "Are there pathways for protein folding?" (PDF). J Chim Phys. 65: 44–45. Bibcode:1968JCP....65...44L. doi:10.1051/jcp/1968650044. Archived from the original (PDF) on 2 September 2009.
Dill KA (June 1999). "Polymer principles and protein folding". Protein Science. 8 (6): 1166–80. doi:10.1110/ps.8.6.1166. PMC 2144345. PMID 10386867.
Leopold PE, Montal M, Onuchic JN (September 1992). "Protein folding funnels: a kinetic approach to the sequence-structure relationship". Proceedings of the National Academy of Sciences of the United States of America. 89 (18): 8721–5. Bibcode:1992PNAS...89.8721L. doi:10.1073/pnas.89.18.8721. PMC 49992. PMID 1528885.
Dill KA, Chan HS (January 1997). "From Levinthal to pathways to funnels". Nature Structural Biology. 4 (1): 10–9. doi:10.1038/nsb0197-10. PMID 8989315. S2CID 11557990.
White SH, Jacobs RE (April 1990). "Statistical distribution of hydrophobic residues along the length of protein chains. Implications for protein folding and evolution". Biophysical Journal. 57 (4): 911–21. Bibcode:1990BpJ....57..911W. doi:10.1016/S0006-3495(90)82611-4. PMC 1280792. PMID 2188687.
George RA, Heringa J (February 2002). "SnapDRAGON: a method to delineate protein structural domains from sequence data". Journal of Molecular Biology. 316 (3): 839–51. CiteSeerX 10.1.1.329.2921. doi:10.1006/jmbi.2001.5387. PMID 11866536.
George RA, Lin K, Heringa J (July 2005). "Scooby-domain: prediction of globular domains in protein sequence". Nucleic Acids Research. 33 (Web Server issue): W160-3. doi:10.1093/nar/gki381. PMC 1160142. PMID 15980446.
Desmadril M, Yon JM (July 1981). "Existence of intermediates in the refolding of T4 lysozyme at pH 7.4". Biochemical and Biophysical Research Communications. 101 (2): 563–9. doi:10.1016/0006-291X(81)91296-1. PMID 7306096.
Teale JM, Benjamin DC (July 1977). "Antibody as immunological probe for studying refolding of bovine serum albumin. Refolding within each domain". The Journal of Biological Chemistry. 252 (13): 4521–6. doi:10.1016/S0021-9258(17)40192-X. PMID 873903.
Potestio R, Pontiggia F, Micheletti C (June 2009). "Coarse-grained description of protein internal dynamics: an optimal strategy for decomposing proteins in rigid subunits". Biophysical Journal. 96 (12): 4993–5002. Bibcode:2009BpJ....96.4993P. doi:10.1016/j.bpj.2009.03.051. PMC 2712024. PMID 19527659.
Baron R, Vellore NA (July 2012). "LSD1/CoREST is an allosteric nanoscale clamp regulated by H3-histone-tail molecular recognition". Proceedings of the National Academy of Sciences of the United States of America. 109 (31): 12509–14. Bibcode:2012PNAS..10912509B. doi:10.1073/pnas.1207892109. PMC 3411975. PMID 22802671.
Farago B, Li J, Cornilescu G, Callaway DJ, Bu Z (November 2010). "Activation of nanoscale allosteric protein domain motion revealed by neutron spin echo spectroscopy". Biophysical Journal. 99 (10): 3473–82. Bibcode:2010BpJ....99.3473F. doi:10.1016/j.bpj.2010.09.058. PMC 2980739. PMID 21081097.
Bu Z, Biehl R, Monkenbusch M, Richter D, Callaway DJ (December 2005). "Coupled protein domain motion in Taq polymerase revealed by neutron spin-echo spectroscopy". Proceedings of the National Academy of Sciences of the United States of America. 102 (49): 17646–51. Bibcode:2005PNAS..10217646B. doi:10.1073/pnas.0503388102. PMC 1345721. PMID 16306270.
Sowdhamini R, Blundell TL (March 1995). "An automatic method involving cluster analysis of secondary structures for the identification of domains in proteins". Protein Science. 4 (3): 506–20. doi:10.1002/pro.5560040317. PMC 2143076. PMID 7795532.
Swindells MB (January 1995). "A procedure for detecting structural domains in proteins". Protein Science. 4 (1): 103–12. doi:10.1002/pro.5560040113. PMC 2142966. PMID 7773168.
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Pandurangan AP, Topf M (February 2012). "Finding rigid bodies in protein structures: Application to flexible fitting into cryoEM maps". Journal of Structural Biology. 177 (2): 520–31. doi:10.1016/j.jsb.2011.10.011. PMID 22079400.
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duke.edu

kinemage.biochem.duke.edu

Richardson JS (1981). "The anatomy and taxonomy of protein structure". Advances in Protein Chemistry. 34: 167–339. doi:10.1016/S0065-3233(08)60520-3. ISBN 9780120342341. PMID 7020376. Archived from the original on 10 February 2019. Retrieved 3 January 2009.

embl.de

smart.embl.de

"SMART: Main page". smart.embl.de. Retrieved 1 January 2017.

harvard.edu

ui.adsabs.harvard.edu

Phillips DC (November 1966). "The three-dimensional structure of an enzyme molecule". Scientific American. 215 (5): 78–90. Bibcode:1966SciAm.215e..78P. doi:10.1038/scientificamerican1166-78. PMID 5978599. S2CID 39959172.
Drenth J, Jansonius JN, Koekoek R, Swen HM, Wolthers BG (June 1968). "Structure of papain". Nature. 218 (5145): 929–32. Bibcode:1968Natur.218..929D. doi:10.1038/218929a0. PMID 5681232. S2CID 4169127.
Porter RR (May 1973). "Structural studies of immunoglobulins". Science. 180 (4087): 713–6. Bibcode:1973Sci...180..713P. doi:10.1126/science.180.4087.713. PMID 4122075.
Edelman GM (May 1973). "Antibody structure and molecular immunology". Science. 180 (4088): 830–40. Bibcode:1973Sci...180..830E. doi:10.1126/science.180.4088.830. PMID 4540988.
Bork P (July 1991). "Shuffled domains in extracellular proteins". FEBS Letters. 286 (1–2): 47–54. Bibcode:1991FEBSL.286...47B. doi:10.1016/0014-5793(91)80937-X. PMID 1864378. S2CID 22126481.
Wetlaufer DB (March 1973). "Nucleation, rapid folding, and globular intrachain regions in proteins". Proceedings of the National Academy of Sciences of the United States of America. 70 (3): 697–701. Bibcode:1973PNAS...70..697W. doi:10.1073/pnas.70.3.697. PMC 433338. PMID 4351801.
Chothia C (June 1992). "Proteins. One thousand families for the molecular biologist". Nature. 357 (6379): 543–4. Bibcode:1992Natur.357..543C. doi:10.1038/357543a0. PMID 1608464. S2CID 4355476.
Bakszt R, Wernimont A, Allali-Hassani A, Mok MW, Hills T, Hui R, Pizarro JC (September 2010). "The crystal structure of Toxoplasma gondii pyruvate kinase 1". PLOS ONE. 5 (9): e12736. Bibcode:2010PLoSO...512736B. doi:10.1371/journal.pone.0012736. PMC 2939071. PMID 20856875.
Banner DW, Bloomer AC, Petsko GA, Phillips DC, Pogson CI, Wilson IA, et al. (June 1975). "Structure of chicken muscle triose phosphate isomerase determined crystallographically at 2.5 angstrom resolution using amino acid sequence data". Nature. 255 (5510): 609–14. Bibcode:1975Natur.255..609B. doi:10.1038/255609a0. PMID 1134550. S2CID 4195346.
Anfinsen CB, Haber E, Sela M, White FH (September 1961). "The kinetics of formation of native ribonuclease during oxidation of the reduced polypeptide chain". Proceedings of the National Academy of Sciences of the United States of America. 47 (9): 1309–14. Bibcode:1961PNAS...47.1309A. doi:10.1073/pnas.47.9.1309. PMC 223141. PMID 13683522.
Levitt M, Chothia C (June 1976). "Structural patterns in globular proteins". Nature. 261 (5561): 552–8. Bibcode:1976Natur.261..552L. doi:10.1038/261552a0. PMID 934293. S2CID 4154884.
Savageau MA (March 1986). "Proteins of Escherichia coli come in sizes that are multiples of 14 kDa: domain concepts and evolutionary implications". Proceedings of the National Academy of Sciences of the United States of America. 83 (5): 1198–202. Bibcode:1986PNAS...83.1198S. doi:10.1073/pnas.83.5.1198. PMC 323042. PMID 3513170.
Jacob F (June 1977). "Evolution and tinkering". Science. 196 (4295): 1161–6. Bibcode:1977Sci...196.1161J. doi:10.1126/science.860134. PMID 860134. S2CID 29756896.
Orengo CA, Jones DT, Thornton JM (December 1994). "Protein superfamilies and domain superfolds". Nature. 372 (6507): 631–4. Bibcode:1994Natur.372..631O. doi:10.1038/372631a0. PMID 7990952. S2CID 4330359.
Henikoff S, Greene EA, Pietrokovski S, Bork P, Attwood TK, Hood L (October 1997). "Gene families: the taxonomy of protein paralogs and chimeras". Science. 278 (5338): 609–14. Bibcode:1997Sci...278..609H. CiteSeerX 10.1.1.562.2262. doi:10.1126/science.278.5338.609. PMID 9381171.
Bork P, Doolittle RF (October 1992). "Proposed acquisition of an animal protein domain by bacteria". Proceedings of the National Academy of Sciences of the United States of America. 89 (19): 8990–4. Bibcode:1992PNAS...89.8990B. doi:10.1073/pnas.89.19.8990. PMC 50050. PMID 1409594.
Levinthal C (1968). "Are there pathways for protein folding?" (PDF). J Chim Phys. 65: 44–45. Bibcode:1968JCP....65...44L. doi:10.1051/jcp/1968650044. Archived from the original (PDF) on 2 September 2009.
Leopold PE, Montal M, Onuchic JN (September 1992). "Protein folding funnels: a kinetic approach to the sequence-structure relationship". Proceedings of the National Academy of Sciences of the United States of America. 89 (18): 8721–5. Bibcode:1992PNAS...89.8721L. doi:10.1073/pnas.89.18.8721. PMC 49992. PMID 1528885.
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Bruce, Alberts (18 November 2014). Molecular biology of the cell (Sixth ed.). New York, NY. ISBN 9780815344322. OCLC 887605755.{{cite book}}: CS1 maint: location missing publisher (link)