(Q45775602)

15 December 2017

title

Expanding the frontiers of protein-protein modeling: from docking and scoring to binding affinity predictions and other challenges (English)

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15 December 2017

author

Carles Pons

7

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15 December 2017

Iain H Moal

8

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15 December 2017

Juan Fernández-Recio

9

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15 December 2017

Miguel Romero-Durana

object named as

Miguel Romero-Durana

4

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Chiara Pallara

object named as

Chiara Pallara

1

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Brian Jimenez

object named as

Brian Jiménez-García

2

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author name string

Laura Pérez-Cano

3

1 reference

15 December 2017

Albert Solernou

5

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15 December 2017

Solène Grosdidier

6

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15 December 2017

language of work or name

English

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publication date

17 October 2013

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15 December 2017

published in

Proteins

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15 December 2017

volume

81

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15 December 2017

issue

12

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15 December 2017

page(s)

2192-2200

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15 December 2017

An empirical framework for binary interactome mapping

cites work

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Estimating the size of the human interactome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Modelling protein docking using shape complementarity, electrostatics and biochemical information

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

A novel shape complementarity scoring function for protein‐protein docking

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Prediction and scoring of docking poses with pyDock.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

SwarmDock: a server for flexible protein-protein docking.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

A physical reference state unifies the structure-derived potential of mean force for protein folding and binding.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Protein docking by Rotation-Based Uniform Sampling (RotBUS) with fast computing of intermolecular contact distance and residue desolvation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Optimization of pyDock for the new CAPRI challenges: Docking of homology-based models, domain-domain assembly and protein-RNA binding.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

An efficient newton-like method for molecular mechanics energy minimization of large molecules

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Present and future challenges and limitations in protein-protein docking

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

CHARMM: the biomolecular simulation program

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

The Amber biomolecular simulation programs

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Comparative protein modelling by satisfaction of spatial restraints

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Basic local alignment search tool

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Statistical potential for assessment and prediction of protein structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Developing a move-set for protein model refinement

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Specificity in protein-protein interactions: the structural basis for dual recognition in endonuclease colicin-immunity protein complexes

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

The structural and energetic basis for high selectivity in a high-affinity protein-protein interaction

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Structural assembly of two-domain proteins by rigid-body docking

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Structure of the ultra-high-affinity colicin E2 DNase--Im2 complex

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Structural consequences of effector protein complex formation in a diiron hydroxylase

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Antibody recognition of a highly conserved influenza virus epitope

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Computational Design of Proteins Targeting the Conserved Stem Region of Influenza Hemagglutinin

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Design, production and molecular structure of a new family of artificial alpha-helicoidal repeat proteins (αRep) based on thermostable HEAT-like repeats

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Thermodynamics and structure of a salmon cold active goose-type lysozyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Structural characterization of the PliG lysozyme inhibitor family

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Crystal structures of g-type lysozyme from Atlantic cod shed new light on substrate binding and the catalytic mechanism

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Efficient restraints for protein-protein docking by comparison of observed amino acid substitution patterns with those predicted from local environment

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Are scoring functions in protein-protein docking ready to predict interactomes? Clues from a novel binding affinity benchmark

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Protein-protein binding affinity prediction on a diverse set of structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Community-wide assessment of protein-interface modeling suggests improvements to design methodology

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

SKEMPI: a Structural Kinetic and Energetic database of Mutant Protein Interactions and its use in empirical models.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

Intermolecular Contact Potentials for Protein-Protein Interactions Extracted from Binding Free Energy Changes upon Mutation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

pyDock: electrostatics and desolvation for effective scoring of rigid-body protein-protein docking

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24387

21 January 2018

Identifiers

DOI

10.1002/PROT.24387

1 reference

15 December 2017

1 reference

15 December 2017