(Q34556000)

3 August 2017

title

Predicting PDZ domain mediated protein interactions from structure (English)

1 reference

3 August 2017

0 references

Gary D Bader

3

0 references

author name string

Shirley Hui

series ordinal

1

1 reference

3 August 2017

Xiang Xing

series ordinal

2

1 reference

3 August 2017

publication date

21 January 2013

1 reference

3 August 2017

1 reference

3 August 2017

volume

14

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3 August 2017

page(s)

27

1 reference

describes a project that uses

3 August 2017

Cytoscape

object named as

Cytoscape

2 references

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

based on heuristic

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

exact match

https://scigraph.springernature.com/pub.10.1186/1471-2105-14-27

0 references

cites work

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7 July 2018

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7 July 2018

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7 July 2018

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7 July 2018

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7 July 2018

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7 July 2018

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The IntAct molecular interaction database in 2010

7 July 2018

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7 July 2018

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Frizzled-PDZ scaffold interactions in the control of Wnt signaling

7 July 2018

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Protein structure prediction: when is it useful?

7 July 2018

1 reference

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Structure-based prediction of the Saccharomyces cerevisiae SH3-ligand interactions

7 July 2018

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Inhibition of Wnt signaling by Dishevelled PDZ peptides

7 July 2018

1 reference

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VASCo: computation and visualization of annotated protein surface contacts.

7 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Growth factors and cytokines in wound healing

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

7 July 2018

The Protein Model Portal

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

A specificity map for the PDZ domain family

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

iRefIndex: a consolidated protein interaction database with provenance

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Predicting PDZ domain-peptide interactions from primary sequences

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Mutated in colorectal cancer, a putative tumor suppressor for serrated colorectal cancer, selectively represses beta-catenin-dependent transcription

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Genome-wide prediction of SH2 domain targets using structural information and the FoldX algorithm.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

QMEAN: A comprehensive scoring function for model quality assessment.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Solution structure of the hDlg/SAP97 PDZ2 domain and its mechanism of interaction with HPV-18 papillomavirus E6 protein

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

PDZ domain binding selectivity is optimized across the mouse proteome

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Solution structure and backbone dynamics of the AF-6 PDZ domain/Bcr peptide complex

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Role of coagulation factor XIII (FXIII) in angiogenesis and tissue repair

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Convergent and divergent ligand specificity among PDZ domains of the LAP and zonula occludens (ZO) families.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Fibrin structure and wound healing

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Molecular biology of human papillomavirus infection and cervical cancer

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Servers for protein structure prediction.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Human protein reference database--2006 update

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Real spherical harmonic expansion coefficients as 3D shape descriptors for protein binding pocket and ligand comparisons.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Making protein interactions druggable: targeting PDZ domains

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

The Database of Interacting Proteins: 2004 update

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Cytoscape: a software environment for integrated models of biomolecular interaction networks

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Assembly of Cell Regulatory Systems Through Protein Interaction Domains

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

BIND: the Biomolecular Interaction Network Database

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Origins of PDZ domain ligand specificity. Structure determination and mutagenesis of the Erbin PDZ domain

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Chemokines in cutaneous wound healing.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Gene ontology: tool for the unification of biology

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

7 July 2018

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=3602153

A PDZ-interacting domain in CFTR is an apical membrane polarization signal

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Negative regulation of axis formation and Wnt signaling in Xenopus embryos by the F-box/WD40 protein beta TrCP.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

JOY: protein sequence-structure representation and analysis.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Recognition of unique carboxyl-terminal motifs by distinct PDZ domains

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Role of platelet-derived growth factor in wound healing: synergistic effects with other growth factors

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

Xenobiotic metabolism by prostaglandin H synthase

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3602153

A machine learning based method for the prediction of G protein-coupled receptor-binding PDZ domain proteins

7 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-14-27

Comparative structural analysis of the Erbin PDZ domain and the first PDZ domain of ZO-1. Insights into determinants of PDZ domain specificity

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-14-27

Structure-based prediction of the peptide sequence space recognized by natural and synthetic PDZ domains

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-14-27

PSoL: a positive sample only learning algorithm for finding non-coding RNA genes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-14-27

CD9 is critical for cutaneous wound healing through JNK signaling.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-14-27

P2Y receptors play a critical role in epithelial cell communication and migration

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-14-27

Diverse and potent activities of HGF/SF in skin wound repair

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-14-27

MeTaDoR: a comprehensive resource for membrane targeting domains and their host proteins.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-14-27

21 January 2018

Identifiers

DOI

10.1186/1471-2105-14-27

1 reference

3 August 2017

DBLP publication ID

journals/bmcbi/HuiXB13

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

3 August 2017

1 reference