(Q21128770)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

title

Sequence co-evolution gives 3D contacts and structures of protein complexes (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

0 references

0 references

0 references

1

Thomas A Hopf

Thomas A

Hopf

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

Charlotta P I Schärfe

series ordinal

2

object named as

Charlotta P I Schärfe

author given names

Charlotta P I

author last names

Schärfe

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

3

João P G L M Rodrigues

author given names

João P G L M

author last names

Rodrigues

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

4

Anna G Green

Anna G

Green

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

7

Alexandre M J J Bonvin

author given names

Alexandre M J J

author last names

Bonvin

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

8

Debora S Marks

Debora S

Marks

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

6

Chris Sander

Chris

Sander

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

5

Oliver Kohlbacher

Oliver

Kohlbacher

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

language of work or name

English

0 references

publication date

25 September 2014

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

volume

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

Sequence co-evolution gives 3D contacts and structures of protein complexes

19 February 2020

cites work

0 references

Three-dimensional structures of membrane proteins from genomic sequencing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Protein 3D structure computed from evolutionary sequence variation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Direct-coupling analysis of residue coevolution captures native contacts across many protein families

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Improved prediction of protein side-chain conformations with SCWRL4

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

The high-affinity E. coli methionine ABC transporter: structure and allosteric regulation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Advances in integrative modeling of biomolecular complexes

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Structural and Functional Characterization of Escherichia coli Toxin-Antitoxin Complex DinJ-YafQ

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Inward facing conformations of the MetNI methionine ABC transporter: Implications for the mechanism of transinhibition

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Asymmetry in the structure of the ABC transporter-binding protein complex BtuCD-BtuF

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Structure of the gamma-epsilon complex of ATP synthase

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Structural changes linked to proton translocation by subunit c of the ATP synthase

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Crystal structure of the epsilon subunit of the proton-translocating ATP synthase from Escherichia coli

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Version 1.2 of the Crystallography and NMR system

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

HADDOCK: a protein-protein docking approach based on biochemical or biophysical information

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Protein structure prediction from sequence variation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

A simple physical model for binding energy hot spots in protein-protein complexes

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Structure-based prediction of protein–protein interactions on a genome-wide scale

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Identification of direct residue contacts in protein-protein interaction by message passing

6 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

IPython: A System for Interactive Scientific Computing

7 April 2017

1 reference

https://api.crossref.org/works/10.7554/ELIFE.03430

Activities at the Universal Protein Resource (UniProt)

22 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

HADDOCK versus HADDOCK: new features and performance of HADDOCK2.0 on the CAPRI targets

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

ARIA: automated NOE assignment and NMR structure calculation

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Evolution of protein interactions: from interactomes to interfaces

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Robust and accurate prediction of residue-residue interactions across protein interfaces using evolutionary information.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Half channels mediating H(+) transport and the mechanism of gating in the Fo sector of Escherichia coli F1Fo ATP synthase

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

The binary protein-protein interaction landscape of Escherichia coli

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Assembly information services in the European Nucleotide Archive

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Assessing the utility of coevolution-based residue-residue contact predictions in a sequence- and structure-rich era.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Emerging methods in protein co-evolution

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Interactions between subunits a and b in the rotary ATP synthase as determined by cross-linking

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

The ATP synthase: the understood, the uncertain and the unknown.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Assembly of macromolecular complexes by satisfaction of spatial restraints from electron microscopy images

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

A method for integrative structure determination of protein-protein complexes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Arrangement of subunits in intact mammalian mitochondrial ATP synthase determined by cryo-EM.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Accurate de novo structure prediction of large transmembrane protein domains using fragment-assembly and correlated mutation analysis

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

PSICOV: precise structural contact prediction using sparse inverse covariance estimation on large multiple sequence alignments

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

InterEvol database: exploring the structure and evolution of protein complex interfaces.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Benchmarking and analysis of protein docking performance in Rosetta v3.2.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Structure of the ATP synthase catalytic complex (F(1)) from Escherichia coli in an autoinhibited conformation

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Hidden Markov model speed heuristic and iterative HMM search procedure

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Computational design of protein-protein interactions

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Contributions of amino acid side chains to the kinetics and thermodynamics of the bivalent binding of protein L to Ig kappa light chain

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Structure of the subunit c oligomer in the F1Fo ATP synthase: model derived from solution structure of the monomer and cross-linking in the native enzyme

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Rewiring the specificity of two-component signal transduction systems

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Individual interactions of the b subunits within the stator of the Escherichia coli ATP synthase

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Improved contact prediction in proteins: using pseudolikelihoods to infer Potts models

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

Accurate prediction of protein-protein interactions from sequence alignments using a Bayesian method

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

How complete are current yeast and human protein-interaction networks?

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4360534

InterEvScore: a novel coarse-grained interface scoring function using a multi-body statistical potential coupled to evolution.

30 May 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Inverse Ising inference using all the data.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Learning generative models for protein fold families.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Characterization of Escherichia coli translesion synthesis polymerases and their accessory factors.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

The role of transmembrane span 2 in the structure and function of subunit a of the ATP synthase from Escherichia coli.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Identification of protein-protein interaction sites from docking energy landscapes.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Computational redesign of protein-protein interaction specificity

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Characterization of the first cytoplasmic loop of subunit a of the Escherichia coli ATP synthase by surface labeling, cross-linking, and mutagenesis

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Interactome3D: adding structural details to protein networks

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

In silico two-hybrid system for the selection of physically interacting protein pairs.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Defining the limits of homology modeling in information-driven protein docking.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Protein and ligand preparation: parameters, protocols, and influence on virtual screening enrichments

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Cross-linking between helices within subunit a of Escherichia coli ATP synthase defines the transmembrane packing of a four-helix bundle.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Modeling of proteins and their assemblies with the Integrative Modeling Platform

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.03430

Disulfide linkage of the b and delta subunits does not affect the function of the Escherichia coli ATP synthase

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25255213

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The gammaepsilon-c subunit interface in the ATP synthase of Escherichia coli. cross-linking of the epsilon subunit to the c subunit ring does not impair enzyme function, that of gamma to c subunits leads to uncoupling

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25255213

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.7554/ELIFE.03430

2 references

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

681382

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

1 reference

OpenCitations bibliographic resource ID

681382

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25255213%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

1 reference