Restricted mobility of conserved residues in protein-protein interfaces in molecular simulations. (Q36538262)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18227135 AND SRC:MED&resulttype=core&format=json

1 January 2020

title

Restricted mobility of conserved residues in protein-protein interfaces in molecular simulations (English)

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1 January 2020

1

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1 January 2020

Metin Turkay

series ordinal

4

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1 January 2020

3

Ruth Nussinov

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1 January 2020

5

Ozlem Keskin

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1 January 2020

author name string

S Bora Erdemli

series ordinal

2

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1 January 2020

language of work or name

English

0 references

publication date

28 January 2008

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1 January 2020

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18227135 AND SRC:MED&resulttype=core&format=json

1 January 2020

volume

94

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1 January 2020

issue

9

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1 January 2020

page(s)

3475-3485

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In silico identification of functional protein interfaces

1 January 2020

cites work

1 reference

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Water mediation in protein folding and molecular recognition

30 September 2017

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Protein-Protein Docking Benchmark 2.0: an update

30 September 2017

1 reference

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The modular architecture of protein-protein binding interfaces

30 September 2017

1 reference

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Analyzing protein function on a genomic scale: the importance of gold-standard positives and negatives for network prediction

30 September 2017

1 reference

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Anchor residues in protein-protein interactions

30 September 2017

1 reference

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A new, structurally nonredundant, diverse data set of protein-protein interfaces and its implications

30 September 2017

1 reference

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Functional classification of proteins for the prediction of cellular function from a protein-protein interaction network

30 September 2017

1 reference

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Protein-protein interactions: structurally conserved residues distinguish between binding sites and exposed protein surfaces

30 September 2017

1 reference

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Increased backbone mobility in beta-barrel enhances entropy gain driving binding of N-TIMP-1 to MMP-3.

30 September 2017

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ConSurf: identification of functional regions in proteins by surface-mapping of phylogenetic information

30 September 2017

1 reference

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Evolutionary rate in the protein interaction network

30 September 2017

1 reference

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Development and current status of the CHARMM force field for nucleic acids.

30 September 2017

1 reference

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Protein functional epitopes: hot spots, dynamics and combinatorial libraries

30 September 2017

1 reference

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Dynamical view of the positions of key side chains in protein-protein recognition

30 September 2017

1 reference

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Proteins with similar architecture exhibit similar large-scale dynamic behavior

30 September 2017

1 reference

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30 September 2017

The Protein Data Bank

1 reference

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Anatomy of hot spots in protein interfaces

30 September 2017

1 reference

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VMD: visual molecular dynamics

30 September 2017

1 reference

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Principles of protein-protein interactions

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2292389

A role for surface hydrophobicity in protein-protein recognition

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2292389

Crystal structure of human uracil-DNA glycosylase in complex with a protein inhibitor: protein mimicry of DNA

30 September 2017

1 reference

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A hot spot of binding energy in a hormone-receptor interface

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2292389

The interpretation of protein structures: Estimation of static accessibility

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2292389

The structure of protein-protein recognition sites

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2292389

Conservation of polar residues as hot spots at protein interfaces

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2292389

Direct evaluation of thermal fluctuations in proteins using a single-parameter harmonic potential

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2292389

Hot regions in protein--protein interactions: the organization and contribution of structurally conserved hot spot residues

28 June 2018

1 reference

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Protein-protein interactions: hot spots and structurally conserved residues often locate in complemented pockets that pre-organized in the unbound states: implications for docking

21 September 2018

1 reference

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Change in protein flexibility upon complex formation: analysis of Ras-Raf using molecular dynamics and a molecular framework approach.

21 September 2018

1 reference

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Computational alanine scanning of protein-protein interfaces

21 September 2018

1 reference

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Conservation helps to identify biologically relevant crystal contacts

21 September 2018

1 reference

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The relationship between the flexibility of proteins and their conformational states on forming protein-protein complexes with an application to protein-protein docking

21 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18227135

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Increased protein backbone conformational entropy upon hydrophobic ligand binding

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18227135

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Entropy changes accompanying association reactions of proteins

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18227135

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1529/BIOPHYSJ.107.114835

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18227135 AND SRC:MED&resulttype=core&format=json

1 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18227135 AND SRC:MED&resulttype=core&format=json

1 January 2020

PubMed publication ID

18227135

1 reference