(Q39972560)

16 September 2017

PSCDB: a database for protein structural change upon ligand binding (English)

1 reference

16 September 2017

0 references

1 reference

Takayuki Amemiya

1

1 reference

16 September 2017

Ryotaro Koike

series ordinal

2

1 reference

16 September 2017

Akinori Kidera

series ordinal

3

1 reference

16 September 2017

Motonori Ota

series ordinal

4

1 reference

16 September 2017

10 November 2011

1 reference

16 September 2017

Nucleic Acids Research

1 reference

16 September 2017

40

1 reference

16 September 2017

Database issue

1 reference

16 September 2017

D554-8

1 reference

Creative Commons Attribution-NonCommercial 3.0 Unported

16 September 2017

start time

12 May 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

The RCSB Protein Data Bank: redesigned web site and web services

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Large conformational changes in proteins: signaling and other functions

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

The role of dynamic conformational ensembles in biomolecular recognition

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

The intrinsic dynamics of enzymes plays a dominant role in determining the structural changes induced upon inhibitor binding

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Database of ligand-induced domain movements in enzymes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Insights into protein flexibility: The relationship between normal modes and conformational change upon protein-protein docking

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Data growth and its impact on the SCOP database: new developments

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

PiQSi: protein quaternary structure investigation.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

What is the relationship between the global structures of apo and holo proteins?

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Binding induced conformational changes of proteins correlate with their intrinsic fluctuations: a case study of antibodies

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

The Database of Macromolecular Motions: new features added at the decade mark

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Normal modes for predicting protein motions: a comprehensive database assessment and associated Web tool

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Conformational changes observed in enzyme crystal structures upon substrate binding

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Crystal structures of Escherichia coli ATP-dependent glucokinase and its complex with glucose

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Conformational change in substrate binding, catalysis and product release: an open and shut case?

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

A novel NAD-binding protein revealed by the crystal structure of 2,3-diketo-L-gulonate reductase (YiaK)

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

The DynDom database of protein domain motions

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Multiple conformational changes in enzyme catalysis

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

A database of macromolecular motions

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Systematic analysis of domain motions in proteins from conformational change: new results on citrate synthase and T4 lysozyme

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

The Protein Data Bank: a computer-based archival file for macromolecular structures

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

How well can we understand large-scale protein motions using normal modes of elastic network models?

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Conformational change of proteins arising from normal mode calculations

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Hydrophobicity of amino acid residues in globular proteins.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Classification and annotation of the relationship between protein structural change and ligand binding.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Linear response theory in dihedral angle space for protein structural change upon ligand binding.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Protein structural change upon ligand binding correlates with enzymatic reaction mechanism

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

How different are structurally flexible and rigid binding sites? Sequence and structural features discriminating proteins that do and do not undergo conformational change upon ligand binding

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Crystal structure of the apo form of D-alanine: D-alanine ligase (Ddl) from Thermus caldophilus: a basis for the substrate-induced conformational changes.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

A comprehensive and non-redundant database of protein domain movements.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Identification of specific interactions that drive ligand-induced closure in five enzymes with classic domain movements

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3245091

Sequence and structural features of carbohydrate binding in proteins and assessment of predictability using a neural network

20 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKR966

How to choose relevant multiple receptor conformations for virtual screening: a test case of Cdk2 and normal mode analysis

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKR966

Improvements in the analysis of domain motions in proteins from conformational change: DynDom version 1.50

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22080505

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Protein structural change upon ligand binding: linear response theory

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22080505

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKR966

1 reference

journals/nar/AmemiyaKKO12

16 September 2017

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

16 September 2017

PubMed publication ID

22080505

1 reference