Protein interactions in 3D: From interface evolution to drug discovery

被引：20

作者：

Winter, Christof ^{[1
]}

Henschel, Andreas ^{[2
]}

Tuukkanen, Anne ^{[1
]}

Schroeder, Michael ^{[1
]}

机构：

[1] Tech Univ Dresden, Ctr Biotechnol, D-01307 Dresden, Germany

[2] Masdar Inst Sci & Technol, Abu Dhabi, U Arab Emirates

来源：

JOURNAL OF STRUCTURAL BIOLOGY | 2012年 / 179卷 / 03期

关键词：

Structural protein interaction; Databases; Evolution; Drug repositioning; Protein interaction prediction; STRUCTURALLY CONSERVED RESIDUES; HOT-SPOTS; CRYSTAL-STRUCTURE; BINDING-SITES; COMPREHENSIVE DATABASE; WEB SERVER; PREDICTION; INHIBITION; SEQUENCE; DOCKING;

D O I：

10.1016/j.jsb.2012.04.009

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Over the past 10 years, much research has been dedicated to the understanding of protein interactions. Large-scale experiments to elucidate the global structure of protein interaction networks have been complemented by detailed studies of protein interaction interfaces. Understanding the evolution of interfaces allows one to identify convergently evolved interfaces which are evolutionary unrelated but share a few key residues and hence have common binding partners. Understanding interaction interfaces and their evolution is an important basis for pharmaceutical applications in drug discovery. Here, we review the algorithms and databases on 3D protein interactions and discuss in detail applications in interface evolution, drug discovery, and interface prediction. (C) 2012 Elsevier Inc. All rights reserved.

引用

页码：347 / 358

页数：12

共 111 条

[51] Equivalent binding sites reveal convergently evolved interaction motifs [J].

Henschel, A ;

Kim, WK ;

Schroeder, M .

BIOINFORMATICS, 2006, 22 (05) :550-555

[52] Using structural motif descriptors for sequence-based binding site prediction [J].

Henschel, Andreas ;

Winter, Christof ;

Kim, Wan Kyu ;

Schroeder, Michael .

BMC BIOINFORMATICS, 2007, 8 (Suppl 4)

[53] The druggable genome [J].

Hopkins, AL ;

Groom, CR .

NATURE REVIEWS DRUG DISCOVERY, 2002, 1 (09) :727-730

[54] CAVITIES AND PACKING AT PROTEIN INTERFACES [J].

HUBBARD, SJ ;

ARGOS, P .

PROTEIN SCIENCE, 1994, 3 (12) :2194-2206

[55] Protein-protein docking tested in blind predictions: the CAPRI experiment [J].

Janin, Joel .

MOLECULAR BIOSYSTEMS, 2010, 6 (12) :2351-2362

[56] SNAPPI-DB: A database and API of structures, iNterfaces and alignments for protein-protein interactions [J].

Jefferson, Emily R. ;

Walsh, Thomas P. ;

Roberts, Timothy J. ;

Barton, Geoffrey J. .

NUCLEIC ACIDS RESEARCH, 2007, 35 :D580-D589

[57] Principles of protein-protein interactions [J].

Jones, S ;

Thornton, JM .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1996, 93 (01) :13-20

[58] DICTIONARY OF PROTEIN SECONDARY STRUCTURE - PATTERN-RECOGNITION OF HYDROGEN-BONDED AND GEOMETRICAL FEATURES [J].

KABSCH, W ;

SANDER, C .

BIOPOLYMERS, 1983, 22 (12) :2577-2637

[59] Recognizing and defining true Ras binding domains II:: In silico prediction based on homology modelling and energy calculations [J].

Kiel, C ;

Wohlgemuth, S ;

Rousseau, F ;

Schymkowitz, J ;

Ferkinghoff-Borg, J ;

Wittinghofer, F ;

Serrano, L .

JOURNAL OF MOLECULAR BIOLOGY, 2005, 348 (03) :759-775

[60] A genome-wide Ras-effector interaction network [J].

Kiel, Christina ;

Foglierini, Mathilde ;

Kuemmerer, Nico ;

Beltrao, Pedro ;

Serrano, Luis .

JOURNAL OF MOLECULAR BIOLOGY, 2007, 370 (05) :1020-1032

← 1 2 3 4 5 6 7 8 9 10 →