相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。Modeling protein-protein and protein-peptide complexes: CAPRI 6th edition
Marc F. Lensink et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2017)
FlexPepDock lessons from CAPRI peptide-protein rounds and suggested new criteria for assessment of model quality and utility
Orly Marcu et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2017)
Modeling disordered protein interactions from biophysical principles
Lenna X. Peterson et al.
PLOS COMPUTATIONAL BIOLOGY (2017)
ELM 2016-data update and new functionality of the eukaryotic linear motif resource
Holger Dinkel et al.
NUCLEIC ACIDS RESEARCH (2016)
DockQ: A Quality Measure for Protein-Protein Docking Models
Sankar Basu et al.
PLOS ONE (2016)
Fully Blind Docking at the Atomic Level for Protein-Peptide Complex Structure Prediction
Chengfei Yan et al.
STRUCTURE (2016)
CABS-dock web server for the flexible docking of peptides to proteins without prior knowledge of the binding site
Mateusz Kurcinski et al.
NUCLEIC ACIDS RESEARCH (2015)
Fully Blind Peptide-Protein Docking with pepATTRACT
Christina E. M. Schindler et al.
STRUCTURE (2015)
AnchorDock: Blind and Flexible Anchor-Driven Peptide Docking
Avraham Ben-Shimon et al.
STRUCTURE (2015)
3Dmol.js: molecular visualization with WebGL
Nicholas Rego et al.
BIOINFORMATICS (2015)
PEP-SiteFinder: a tool for the blind identification of peptide binding sites on protein surfaces
Adrien Saladin et al.
NUCLEIC ACIDS RESEARCH (2014)
Protein Loop Modeling Using a New Hybrid Energy Function and Its Application to Modeling in Inaccurate Structural Environments
Hahnbeom Park et al.
PLOS ONE (2014)
Encounter complexes and dimensionality reduction in protein-protein association
Dima Kozakov et al.
ELIFE (2014)
Druggable protein-protein interactions - from hot spots to hot segments
Nir London et al.
CURRENT OPINION IN CHEMICAL BIOLOGY (2013)
A Unified Conformational Selection and Induced Fit Approach to Protein-Peptide Docking
Mikael Trellet et al.
PLOS ONE (2013)
Detection of peptide-binding sites on protein surfaces: The first step toward the modeling and targeting of peptide-mediated interactions
Assaf Lavi et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2013)
How good is automated protein docking?
Dima Kozakov et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2013)
High-Resolution Comparative Modeling with RosettaCM
Yifan Song et al.
STRUCTURE (2013)
PepSite: prediction of peptide-binding sites from protein surfaces
Leonardo G. Trabuco et al.
NUCLEIC ACIDS RESEARCH (2012)
BriX: a database of protein building blocks for structural analysis, modeling and design
Peter Vanhee et al.
NUCLEIC ACIDS RESEARCH (2011)
Rosetta FlexPepDockab-initio: Simultaneous Folding, Docking and Refinement of Peptides onto Their Receptors
Barak Raveh et al.
PLOS ONE (2011)
Generalized Fragment Picking in Rosetta: Design, Protocols and Applications
Dominik Gront et al.
PLOS ONE (2011)
The Structural Basis of Peptide-Protein Binding Strategies
Nir London et al.
STRUCTURE (2010)
Protein-protein docking using region-based 3D Zernike descriptors
Vishwesh Venkatraman et al.
BMC BIOINFORMATICS (2009)
CHARMM: The Biomolecular Simulation Program
B. R. Brooks et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2009)
Protein-Peptide Interactions Adopt the Same Structural Motifs as Monomeric Protein Folds
Peter Vanhee et al.
STRUCTURE (2009)
Peptide-mediated interactions in biological systems: new discoveries and applications
Evangelia Petsalaki et al.
CURRENT OPINION IN BIOTECHNOLOGY (2008)
Characterization of molecular recognition features, MoRFs, and their binding partners
Vladimir Vacic et al.
JOURNAL OF PROTEOME RESEARCH (2007)
Atypical polyproline recognition by the CMS N-terminal SRC homology 3 domain
Gabriel Moncalian et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2006)
PIPER: An FFT-based protein docking program with pairwise potentials
Dima Kozakov et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2006)
Crystal structures of beryllium fluoride-free and beryllium fluoride-bound CheY in complex with the conserved C-terminal peptide of CheZ reveal dual binding modes specific to CheY conformation
Jayita Guhaniyogi et al.
JOURNAL OF MOLECULAR BIOLOGY (2006)
Folding very short peptides using molecular dynamics
Bosco K. Ho et al.
PLOS COMPUTATIONAL BIOLOGY (2006)
The backrub motion: How protein backbone shrugs when a sidechain dances
IW Davis et al.
STRUCTURE (2006)
The role of docking interactions in mediating signaling input, output, and discrimination in the yeast MAPK network
A Reményi et al.
MOLECULAR CELL (2005)
Systematic discovery of new recognition peptides mediating protein interaction networks
V Neduva et al.
PLOS BIOLOGY (2005)
Cbl promotes clustering of endocytic adaptor proteins
D Jozic et al.
NATURE STRUCTURAL & MOLECULAR BIOLOGY (2005)
Structural and biochemical mechanisms for the specificity of hormone binding and coactivator assembly by mineralocorticoid receptor
Y Li et al.
MOLECULAR CELL (2005)
Assessment of CAPRI predictions in rounds 3-5 shows progress in docking procedures
R Méndez et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2005)
Design of a novel globular protein fold with atomic-level accuracy
B Kuhlman et al.
SCIENCE (2003)
Secondary structure prediction with support vector machines
JJ Ward et al.
BIOINFORMATICS (2003)
Protein-protein docking with simultaneous optimization of rigid-body displacement and side-chain conformations
JJ Gray et al.
JOURNAL OF MOLECULAR BIOLOGY (2003)
ELM server:: a new resource for investigating short functional sites in modular eukaryotic proteins
P Puntervoll et al.
NUCLEIC ACIDS RESEARCH (2003)
Assessment of blind predictions of protein-protein interactions:: Current status of docking methods
R Méndez et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2003)
Assembly of cell regulatory systems through protein interaction domains
T Pawson et al.
SCIENCE (2003)
A structural model for the inhibition of calpain by calpastatin: Crystal structures of the native domain VI of calpain and its complexes with calpastatin peptide and a small molecule inhibitor
B Todd et al.
JOURNAL OF MOLECULAR BIOLOGY (2003)
HADDOCK: A protein-protein docking approach based on biochemical or biophysical information
C Dominguez et al.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2003)
The CATH database: an extended protein family resource for structural and functional genomics
FMG Pearl et al.
NUCLEIC ACIDS RESEARCH (2003)
The Protein Data Bank
HM Berman et al.
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY (2002)
The Protein Data Bank
HM Berman et al.
NUCLEIC ACIDS RESEARCH (2000)