Residue centrality, functionally important residues, and active site shape: analysis of enzyme and non-enzyme families (Q36458637)

14 August 2017

Residue centrality, functionally important residues, and active site shape: analysis of enzyme and non-enzyme families (English)

1 reference

14 August 2017

1 reference

4

Ruth Nussinov

1 reference

14 August 2017

2

Hirotomo Fujihashi

1 reference

14 August 2017

Antonio del Sol

1

1 reference

PMCID

2242611

14 August 2017

Dolors Amoros

series ordinal

3

1 reference

14 August 2017

1 August 2006

1 reference

14 August 2017

1 reference

14 August 2017

15

1 reference

14 August 2017

9

1 reference

14 August 2017

2120-2128

1 reference

Residues crucial for maintaining short paths in network communication mediate signaling in proteins

14 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Using a library of structural templates to recognise catalytic sites and explore their evolution in homologous families

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

HIV-1 protease molecular dynamics of a wild-type and of the V82F/I84V mutant: possible contributions to drug resistance and a potential new target site for drugs

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Small-world communication of residues and significance for protein dynamics

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Uncovering network systems within protein structures.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Topological determinants of protein folding

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Why are proteins so robust to site mutations?

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

THEMATICS: a simple computational predictor of enzyme function from structure

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Automated structure-based prediction of functional sites in proteins: applications to assessing the validity of inheriting protein function from homology in genome annotation and to protein docking.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Lethality and centrality in protein networks

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

BIND--The Biomolecular Interaction Network Database

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

30 September 2017

The Protein Data Bank

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Evolutionarily conserved pathways of energetic connectivity in protein families

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Non-active site changes elicit broad-based cross-resistance of the HIV-1 protease to inhibitors

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Use of propensities of amino acids to the local structural environments to understand effect of substitution mutations on protein stability

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Collective dynamics of 'small-world' networks

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

PDBsum: a Web-based database of summaries and analyses of all PDB structures

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

An evolutionary trace method defines binding surfaces common to protein families

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

In vivo characterization of mutants of the bacteriophage f1 gene V protein isolated by saturation mutagenesis

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

SCOP: a structural classification of proteins database for the investigation of sequences and structures

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Protein clefts in molecular recognition and function

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Small-world view of the amino acids that play a key role in protein folding.

28 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1110%2FPS.062249106

A method for localizing ligand binding pockets in protein structures

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Intramolecular signaling pathways revealed by modeling anisotropic thermal diffusion

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

3DCoffee: combining protein sequences and structures within multiple sequence alignments

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Three-dimensional cluster analysis identifies interfaces and functional residue clusters in proteins

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Protein-protein interfaces: analysis of amino acid conservation in homodimers

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Network Analysis of Protein Structures Identifies Functional Residues

21 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2242611

Automatic methods for predicting functionally important residues

4 December 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16882992

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Small-world network approach to identify key residues in protein-protein interaction

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16882992

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Topology of small-world networks of protein-protein complex structures

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16882992

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1110/PS.062249106

1 reference

14 August 2017

1 reference

14 August 2017

1 reference

PMCID

2242611