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For: Burley SK, Bonanno JB. Structuring the universe of proteins. Annu Rev Genomics Hum Genet 2002;3:243-62. [PMID: 12194989 DOI: 10.1146/annurev.genom.3.022502.103227] [Citation(s) in RCA: 53] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Number Cited by Other Article(s)
1
Bondos SE, Dunker AK, Uversky VN. On the roles of intrinsically disordered proteins and regions in cell communication and signaling. Cell Commun Signal 2021;19:88. [PMID: 34461937 PMCID: PMC8404256 DOI: 10.1186/s12964-021-00774-3] [Citation(s) in RCA: 44] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]  Open
2
Chudapongse N, Krubphachaya P, Leelayuwat C, Kermode JC. Expression and Purification of a Soluble Recombinant A1 Domain of Human von Willebrand Factor in Bacteria. BIOTECHNOL BIOTEC EQ 2014. [DOI: 10.5504/bbeq.2011.0087] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]  Open
3
Ostrowski J, Wyrwicz LS. Integrating genomics, proteomics and bioinformatics in translational studies of molecular medicine. Expert Rev Mol Diagn 2014;9:623-30. [DOI: 10.1586/erm.09.41] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
4
Tari LW, Rosenberg M, Schryvers AB. Structural proteomics in drug discovery. Expert Rev Proteomics 2014;2:511-9. [PMID: 16097885 DOI: 10.1586/14789450.2.4.511] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
5
Tommy YBW, Lim TS, Noordin R, Saadatnia G, Choong YS. Theoretical investigation on structural, functional and epitope of a 12 kDa excretory-secretory protein from Toxoplasma gondii. BMC STRUCTURAL BIOLOGY 2012;12:30. [PMID: 23181504 PMCID: PMC3542155 DOI: 10.1186/1472-6807-12-30] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/05/2012] [Accepted: 11/23/2012] [Indexed: 11/10/2022]
6
Siloto RM, Weselake RJ. Site saturation mutagenesis: Methods and applications in protein engineering. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2012. [DOI: 10.1016/j.bcab.2012.03.010] [Citation(s) in RCA: 78] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
7
Hemmerlin A, Harwood JL, Bach TJ. A raison d'être for two distinct pathways in the early steps of plant isoprenoid biosynthesis? Prog Lipid Res 2011;51:95-148. [PMID: 22197147 DOI: 10.1016/j.plipres.2011.12.001] [Citation(s) in RCA: 217] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2011] [Revised: 11/28/2011] [Accepted: 12/05/2011] [Indexed: 12/12/2022]
8
Conlan AR, Paddock ML, Axelrod HL, Cohen AE, Abresch EC, Wiley S, Roy M, Nechushtai R, Jennings PA. The novel 2Fe-2S outer mitochondrial protein mitoNEET displays conformational flexibility in its N-terminal cytoplasmic tethering domain. Acta Crystallogr Sect F Struct Biol Cryst Commun 2009;65:654-9. [PMID: 19574633 DOI: 10.1107/s1744309109019605] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2009] [Accepted: 05/22/2009] [Indexed: 12/25/2022]
9
Pascual-García A, Abia D, Ortiz ÁR, Bastolla U. Cross-over between discrete and continuous protein structure space: insights into automatic classification and networks of protein structures. PLoS Comput Biol 2009;5:e1000331. [PMID: 19325884 PMCID: PMC2654728 DOI: 10.1371/journal.pcbi.1000331] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2008] [Accepted: 02/11/2009] [Indexed: 11/19/2022]  Open
10
Cradle-loop barrels and the concept of metafolds in protein classification by natural descent. Curr Opin Struct Biol 2008;18:358-65. [DOI: 10.1016/j.sbi.2008.02.006] [Citation(s) in RCA: 50] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2007] [Accepted: 02/14/2008] [Indexed: 11/19/2022]
11
Piedra D, Lois S, de la Cruz X. Preservation of protein clefts in comparative models. BMC STRUCTURAL BIOLOGY 2008;8:2. [PMID: 18199319 PMCID: PMC2249585 DOI: 10.1186/1472-6807-8-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/29/2007] [Accepted: 01/16/2008] [Indexed: 11/29/2022]
12
Hausrath AC, Goriely A. Continuous representations of proteins: construction of coordinate models from curvature profiles. J Struct Biol 2006;158:267-81. [PMID: 17222563 DOI: 10.1016/j.jsb.2006.11.003] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2006] [Revised: 10/27/2006] [Accepted: 11/07/2006] [Indexed: 12/01/2022]
13
Yura K, Yamaguchi A, Go M. Coverage of whole proteome by structural genomics observed through protein homology modeling database. JOURNAL OF STRUCTURAL AND FUNCTIONAL GENOMICS 2006;7:65-76. [PMID: 17146617 PMCID: PMC1769342 DOI: 10.1007/s10969-006-9010-3] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/11/2006] [Accepted: 08/08/2006] [Indexed: 11/07/2022]
14
Zhang Y, Hubner IA, Arakaki AK, Shakhnovich E, Skolnick J. On the origin and highly likely completeness of single-domain protein structures. Proc Natl Acad Sci U S A 2006;103:2605-10. [PMID: 16478803 PMCID: PMC1413790 DOI: 10.1073/pnas.0509379103] [Citation(s) in RCA: 143] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
15
Lee SJ, Lee DW, Choe EA, Hong YH, Kim SB, Kim BC, Pyun YR. Characterization of a thermoacidophilic L-arabinose isomerase from Alicyclobacillus acidocaldarius: role of Lys-269 in pH optimum. Appl Environ Microbiol 2006;71:7888-96. [PMID: 16332764 PMCID: PMC1317409 DOI: 10.1128/aem.71.12.7888-7896.2005] [Citation(s) in RCA: 78] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
16
Noeske T, Gutcaits A, Parsons C, Weil T. Allosteric Modulation of Family 3 GPCRs. ACTA ACUST UNITED AC 2006. [DOI: 10.1002/qsar.200510139] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
17
Lenhoff AM. A natural interaction: Chemical engineering and molecular biophysics. AIChE J 2006. [DOI: 10.1002/aic.690490402] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
18
Leulliot N, Quevillon-Cheruel S, Graille M, Schiltz M, Blondeau K, Janin J, Van Tilbeurgh H. Crystal structure of yeast YER010Cp, a knotable member of the RraA protein family. Protein Sci 2005;14:2751-8. [PMID: 16195557 PMCID: PMC2253287 DOI: 10.1110/ps.051684005] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
19
Reinlib L. Meeting report: Structural determination of environmentally responsive proteins. ENVIRONMENTAL HEALTH PERSPECTIVES 2005;113:1622-6. [PMID: 16263521 PMCID: PMC1310928 DOI: 10.1289/ehp.8129] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
20
Kulkarni-Kale U, Bhosle S, Kolaskar AS. CEP: a conformational epitope prediction server. Nucleic Acids Res 2005;33:W168-71. [PMID: 15980448 PMCID: PMC1160221 DOI: 10.1093/nar/gki460] [Citation(s) in RCA: 163] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]  Open
21
Dzivenu OK, Park HH, Wu H. General co-expression vectors for the overexpression of heterodimeric protein complexes in Escherichia coli. Protein Expr Purif 2005;38:1-8. [PMID: 15477075 DOI: 10.1016/j.pep.2004.07.016] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2003] [Revised: 07/26/2004] [Indexed: 11/21/2022]
22
Granucci F, Foti M, Ricciardi-Castagnoli P. Dendritic Cell Biology. Adv Immunol 2005;88:193-233. [PMID: 16227091 DOI: 10.1016/s0065-2776(05)88006-x] [Citation(s) in RCA: 59] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
23
Ceulemans H, Russell RB. Fast Fitting of Atomic Structures to Low-resolution Electron Density Maps by Surface Overlap Maximization. J Mol Biol 2004;338:783-93. [PMID: 15099745 DOI: 10.1016/j.jmb.2004.02.066] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2003] [Revised: 02/18/2004] [Accepted: 02/19/2004] [Indexed: 11/21/2022]
24
Kim S, Zhang Z, Upchurch S, Isern N, Chen Y. Structure and DNA-binding Sites of the SWI1 AT-rich Interaction Domain (ARID) Suggest Determinants for Sequence-specific DNA Recognition. J Biol Chem 2004;279:16670-6. [PMID: 14722072 DOI: 10.1074/jbc.m312115200] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
25
Gensheimer M, Mushegian A. Chalcone isomerase family and fold: no longer unique to plants. Protein Sci 2004;13:540-4. [PMID: 14718655 PMCID: PMC2286709 DOI: 10.1110/ps.03395404] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
26
Miedlich SU, Gama L, Seuwen K, Wolf RM, Breitwieser GE. Homology modeling of the transmembrane domain of the human calcium sensing receptor and localization of an allosteric binding site. J Biol Chem 2003;279:7254-63. [PMID: 14660633 DOI: 10.1074/jbc.m307191200] [Citation(s) in RCA: 120] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
27
Aramini JM, Huang YJ, Cort JR, Goldsmith-Fischman S, Xiao R, Shih LY, Ho CK, Liu J, Rost B, Honig B, Kennedy MA, Acton TB, Montelione GT. Solution NMR structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii. Protein Sci 2003;12:2823-30. [PMID: 14627742 PMCID: PMC2366990 DOI: 10.1110/ps.03359003] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2003] [Revised: 08/08/2003] [Accepted: 08/18/2003] [Indexed: 10/26/2022]
28
Teller DC, Stenkamp RE, Palczewski K. Evolutionary analysis of rhodopsin and cone pigments: connecting the three-dimensional structure with spectral tuning and signal transfer. FEBS Lett 2003;555:151-9. [PMID: 14630336 PMCID: PMC1468034 DOI: 10.1016/s0014-5793(03)01152-9] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
29
Banatao DR, Altman RB, Klein TE. Microenvironment analysis and identification of magnesium binding sites in RNA. Nucleic Acids Res 2003;31:4450-60. [PMID: 12888505 PMCID: PMC169872 DOI: 10.1093/nar/gkg471] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
30
Effken JA, Brewer BB, Patil A, Lamb GS, Verran JA, Carley KM. Using computational modeling to transform nursing data into actionable information. J Biomed Inform 2003;36:351-61. [PMID: 14643731 DOI: 10.1016/j.jbi.2003.09.018] [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] [Indexed: 10/26/2022]
31
Ouzounis CA, Coulson RMR, Enright AJ, Kunin V, Pereira-Leal JB. Classification schemes for protein structure and function. Nat Rev Genet 2003;4:508-19. [PMID: 12838343 DOI: 10.1038/nrg1113] [Citation(s) in RCA: 74] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
32
Liang MP, Banatao DR, Klein TE, Brutlag DL, Altman RB. WebFEATURE: An interactive web tool for identifying and visualizing functional sites on macromolecular structures. Nucleic Acids Res 2003;31:3324-7. [PMID: 12824318 PMCID: PMC168960 DOI: 10.1093/nar/gkg553] [Citation(s) in RCA: 67] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
33
Man O, Atarot T, Sadot A, Olender T, Lancet D. From subgenome analysis to protein structure. Curr Opin Struct Biol 2003;13:353-8. [PMID: 12831887 DOI: 10.1016/s0959-440x(03)00071-x] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
34
Pineda-Lucena A, Liao JCC, Cort JR, Yee A, Kennedy MA, Edwards AM, Arrowsmith CH. A novel member of the split betaalphabeta fold: Solution structure of the hypothetical protein YML108W from Saccharomyces cerevisiae. Protein Sci 2003;12:1136-40. [PMID: 12717036 PMCID: PMC2323884 DOI: 10.1110/ps.0240903] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2002] [Revised: 01/28/2003] [Accepted: 02/06/2003] [Indexed: 10/27/2022]
35
Hosfield D, Palan J, Hilgers M, Scheibe D, McRee DE, Stevens RC. A fully integrated protein crystallization platform for small-molecule drug discovery. J Struct Biol 2003;142:207-17. [PMID: 12718932 DOI: 10.1016/s1047-8477(03)00051-0] [Citation(s) in RCA: 49] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
36
Lan N, Montelione GT, Gerstein M. Ontologies for proteomics: towards a systematic definition of structure and function that scales to the genome level. Curr Opin Chem Biol 2003;7:44-54. [PMID: 12547426 DOI: 10.1016/s1367-5931(02)00020-0] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
37
Zhang C, Kim SH. Overview of structural genomics: from structure to function. Curr Opin Chem Biol 2003;7:28-32. [PMID: 12547423 DOI: 10.1016/s1367-5931(02)00015-7] [Citation(s) in RCA: 87] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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