摘要: The ProFunc web server is a tool for helping identify the function of given protein whose 3D coordinates have been experimentally determined or homology modeled. It uses cocktail both sequence- and structure-based methods to matches other proteins that may, in turn, suggest query protein's most likely function. was originally developed aid worldwide structural genomics effort at start millennium. accepts file containing PDB format, and, when processing complete, sends an email link password-protected result pages. results include at-a-glance summary, as well separate pages more detailed analyses. can be found at: http://www.ebi.ac.uk/thornton-srv/databases/profunc .
springer.com
sci-hub.se 参考文章(36)
C. Chothia, A.M. Lesk, The relation between the divergence of sequence and structure in proteins. The EMBO Journal. ,vol. 5, pp. 823- 826 ,(1986) , 10.1002/J.1460-2075.1986.TB04288.X
Philip E. Bourne, Helen M. Berman, Brian McMahon, Keith D. Watenpaugh, John D. Westbrook, Paula M.D. Fitzgerald, [30] Macromolecular crystallographic information file Methods in Enzymology. ,vol. 277, pp. 571- 590 ,(1997) , 10.1016/S0076-6879(97)77032-0
William R. Pearson, Rapid and Sensitive Sequence Comparison with FASTP and FASTA. Methods in Enzymology. ,vol. 183, pp. 63- 98 ,(1990) , 10.1016/0076-6879(90)83007-V
M. B. Swindells, J. M. Thornton, N. M. Luscombe, R. A. Laskowski, Protein clefts in molecular recognition and function. Protein Science. ,vol. 5, pp. 2438- 2452 ,(1996) , 10.1002/PRO.5560051206
Craig T Porter, Gail J Bartlett, Janet M Thornton, The Catalytic Site Atlas: a resource of catalytic sites and residues identified in enzymes using structural data Nucleic Acids Research. ,vol. 32, pp. 129D- 133 ,(2004) , 10.1093/NAR/GKH028
Frances C. Bernstein, Thomas F. Koetzle, Graheme J.B. Williams, Edgar F. Meyer, Michael D. Brice, John R. Rodgers, Olga Kennard, Takehiko Shimanouchi, Mitsuo Tasumi, The Protein Data Bank: a computer-based archival file for macromolecular structures. Journal of Molecular Biology. ,vol. 112, pp. 535- 542 ,(1977) , 10.1016/S0022-2836(77)80200-3
James D Watson, E.James Milner-White, The conformations of polypeptide chains where the main-chain parts of successive residues are enantiomeric. Their occurrence in cation and anion-binding regions of proteins. Journal of Molecular Biology. ,vol. 315, pp. 183- 191 ,(2002) , 10.1006/JMBI.2001.5228
James D Watson, E.James Milner-White, A novel main-chain anion-binding site in proteins: the nest. A particular combination of φ,ψ values in successive residues gives rise to anion-binding sites that occur commonly and are found often at functionally important regions Journal of Molecular Biology. ,vol. 315, pp. 171- 182 ,(2002) , 10.1006/JMBI.2001.5227
Youngchang Kim, Christine Tesar, Joseph Mire, Robert Jedrzejczak, Andrew Binkowski, Gyorgy Babnigg, James Sacchettini, Andrzej Joachimiak, Structure of Apo- and Monometalated Forms of NDM-1—A Highly Potent Carbapenem-Hydrolyzing Metallo-β-Lactamase PLoS ONE. ,vol. 6, pp. e24621- ,(2011) , 10.1371/JOURNAL.PONE.0024621
Annabel E Todd, Christine A Orengo, Janet M Thornton, Evolution of function in protein superfamilies, from a structural perspective. Journal of Molecular Biology. ,vol. 307, pp. 1113- 1143 ,(2001) , 10.1006/JMBI.2001.4513