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The ClusPro web server for protein-protein docking

author

Dima Kozakov

Sandor Vajda

published in: Nature Protocols

date of publication: 2017-01-12

language: English

main subject: web server

Cites articles 132

Date

Title

Authors

2016-08-18

GalaxyRefineComplex: Refinement of protein-protein complex model structures driven by interface repacking

Chaok Seok, Lim Heo, Hasup Lee
2016-07-13

Protein-protein docking by fast generalized Fourier transforms on 5D rotational manifolds

Yaroslav Kholodov, David W. Ritchie, Sandor Vajda, Dima Kozakov
2016-05-12

A benchmark testing ground for integrating homology modeling and protein docking

Dima Kozakov, Shoshana Wodak, Alexandre Bonvin, Sandor Vajda, Ora Schueler-Furman
2016-03-12

FRODOCK 2.0: fast protein-protein docking server

Pablo Chacón
2016-04-29

InterEvDock: a docking server to predict the structure of protein-protein interactions using evolutionary information

Jinchao Yu, Jessica Andreani, Pierre Tuffery, Raphaël Guérois
2016-06-01

Prediction of homoprotein and heteroprotein complexes by protein docking and template-based modeling: A CASP-CAPRI experiment

Romina Oliva, Marc F. Lensink, Sameer Velankar, Andriy Kryshtafovych, Joan Segura, Narcis Fernandez-Fuentes, Emilie Neveu, David W. Ritchie, Marie-Dominique Devignes, Mieczyslaw Torchala, Paul A. Bates, Brian G Pierce, Raphaël Guérois, Anna Vangone, João Pglm Rodrigues, Panagiotis L. Kastritis, Alexandre Bonvin, Xianjin Xu, Yang Shen, Yang Shen, Neil J Bruce, Rebecca C Wade, Kenichiro Imai, Kentaro Tomii, Miguel Romero-Durana, Brian Jimenez, Iain H Moal, Dima Kozakov, Daisuke Kuroda, Shourya S Roy Burman, Jeffrey J. Gray, Luigi Cavallo, Shoshana Wodak, Dina Schneidman-Duhovny, Minkyung Baek, Chaok Seok, Lim Heo, Gyu Rie Lee, Hasup Lee, Adrien S.J. Melquiond, Koen M Visscher, Thom Vreven, Ezgi Karaca
2015-06-10

Accounting for observed small angle X-ray scattering profile in the protein-protein docking server ClusPro

Dima Kozakov, Sandor Vajda
2015-03-24

The impact of side-chain packing on protein docking refinement

Dima Kozakov
2015-02-01

A web interface for easy flexible protein-protein docking with ATTRACT

Martin Zacharias
2015-01-14

Activating mutations of STAT5B and STAT3 in lymphomas derived from γδ-T or NK cells

Can Alkan, Qiang Gong, Laurence de Leval, Can Küçük, Timothy W McKeithan, Sirpa Leppä, Philippe Gaulard, Wing C Chan
2014-12-23

Generation and characterization of small single domain antibodies inhibiting human tumor necrosis factor receptor 1.

Philip Meuleman, Geert Leroux-Roels, Sophie Steeland, Paco Hulpiau, Debby Laukens, Nick Devoogdt, Roosmarijn E. Vandenbroucke, Claude Libert
2014-07-10

Docking server for the identification of heparin binding sites on proteins

Dima Kozakov
2014-05-30

Methods for SAXS-based structure determination of biomolecular complexes

Sichun Yang
2014-04-10

Reprogramming acyl carrier protein interactions of an Acyl-CoA promiscuous trans-acyltransferase
2014-02-18

Vaccine-elicited primate antibodies use a distinct approach to the HIV-1 primary receptor binding site informing vaccine redesign

Ian Andrew Wilson, Christopher Sundling, Andrew B Ward, Richard T. Wyatt
2014-01-01

DOCK/PIERR: web server for structure prediction of protein-protein complexes.
2014-01-01

Pairwise and multimeric protein-protein docking using the LZerD program suite
2013-10-17

Docking, scoring, and affinity prediction in CAPRI.

Shoshana Wodak, Marc F. Lensink
2013-10-17

How good is automated protein docking?

Dima Kozakov
2013-10-17

Improved flexible refinement of protein docking in CAPRI rounds 22-27.
2013-01-13

Mutations in the NOTCH pathway regulator MIB1 cause left ventricular noncompaction cardiomyopathy

Gaetano D'Amato, Carlos Torroja, Lorenzo Monserrat, Luis Jesús Jiménez Borreguero, José Luis De La Pompa Mínguez, Alvaro Gonzalez-Rajal, Fernando Martinez, María Sabater-Molina, Jose L Izquierdo-Garcia, Donal MacGrogan
2012-10-21

Structural basis of bacterial defense against g-type lysozyme-based innate immunity

Stephen D. Weeks, Chris W Michiels
2012-10-01

Application of asymmetric statistical potentials to antibody-protein docking

Ora Schueler-Furman, Dima Kozakov
2012-02-13

Protein docking by the interface structure similarity: how much structure is needed?
2011

Structural Insights into the Mechanism of Protein O-Fucosylation

Marta Martínez-Júlvez, Ramón Hurtado-Guerrero, Pedro Merino, Santosh Panjikar
2011-09-19

Accelerating protein docking in ZDOCK using an advanced 3D convolution library

Brian G Pierce
2011-07-08

The bladder tumor suppressor protein TERE1 (UBIAD1) modulates cell cholesterol: implications for tumor progression

Ludger A Wessjohann
2011-03-17

Zinc binding to the Tyr402 and His402 allotypes of complement factor H: possible implications for age-related macular degeneration

Irene Farabella, A C Martin, Imre Lengyel
2010-09-28

SwarmDock and the use of normal modes in protein-protein docking

Iain H Moal, Paul A. Bates
2010-10-12

Macromolecular docking restrained by a small angle X-ray scattering profile

Dina Schneidman-Duhovny, Andrej Šali, Michal Hammel
2010-11-01

Achieving reliability and high accuracy in automated protein docking: ClusPro, PIPER, SDU, and stability analysis in CAPRI rounds 13-19

Yang Shen, Dima Kozakov
2010-09-08

Structural characterization of protein-protein complexes by integrating computational docking with small-angle scattering data

Carles Pons, Marco D'abramo, Juan Fernández-Recio, Dmitri Svergun, Modesto Orozco

Article - wd:Q39024817

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