(Q30374720)

18 August 2017

Using sequence similarity networks for visualization of relationships across diverse protein superfamilies. (English)

1 reference

18 August 2017

1 reference

Thomas E Ferrin

3

0 references

Patricia Babbitt

series ordinal

4

object named as

Patricia C Babbitt

1 reference

18 August 2017

2

John H Morris

1 reference

18 August 2017

Holly J Atkinson

1

1 reference

PMCID

2631154

18 August 2017

language of work or name

English

0 references

publication date

3 February 2009

1 reference

18 August 2017

1 reference

18 August 2017

4

1 reference

18 August 2017

e4345

1 reference

18 August 2017

2

1 reference

Creative Commons CC0 License

18 August 2017

start time

3 February 2009

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted, dedicated to the public domain by copyright holder

0 references

describes a project that uses

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

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The 2.6 angstrom crystal structure of a human A2A adenosine receptor bound to an antagonist

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Structure of a beta1-adrenergic G-protein-coupled receptor

20 June 2018

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Crystal structure of squid rhodopsin

20 June 2018

1 reference

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WNKs: protein kinases with a unique kinase domain

20 June 2018

1 reference

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Dendroscope: An interactive viewer for large phylogenetic trees

20 June 2018

1 reference

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High-resolution crystal structure of an engineered human beta2-adrenergic G protein-coupled receptor

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

Crystal structure of the human beta2 adrenergic G-protein-coupled receptor

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

Prediction and assignment of function for a divergent N-succinyl amino acid racemase

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

Structural diversity within the mononuclear and binuclear active sites of N-acetyl-D-glucosamine-6-phosphate deacetylase

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

The generation of new protein functions by the combination of domains

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

Protein homology network families reveal step-wise diversification of Type III and Type IV secretion systems

20 June 2018

1 reference

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Emerging roles of pseudokinases

20 June 2018

1 reference

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Tools for integrated sequence-structure analysis with UCSF Chimera

20 June 2018

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Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

Leveraging enzyme structure-function relationships for functional inference and experimental design: the structure-function linkage database

20 June 2018

1 reference

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Pfam: clans, web tools and services

20 June 2018

1 reference

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Structural biology of the thioester-dependent degradation and synthesis of fatty acids.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

MUSCLE: a multiple sequence alignment method with reduced time and space complexity

20 June 2018

1 reference

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CLANS: a Java application for visualizing protein families based on pairwise similarity

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

Protein kinase Cdelta selectively regulates protein kinase D-dependent activation of NF-kappaB in oxidative stress signaling

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

The Pfam protein families database

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

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

20 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

The protein kinase complement of the human genome

20 June 2018

1 reference

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The cannabinoid receptors.

20 June 2018

1 reference

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An efficient algorithm for large-scale detection of protein families

20 June 2018

1 reference

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MRBAYES: Bayesian inference of phylogenetic trees

20 June 2018

1 reference

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The crotonase superfamily: divergently related enzymes that catalyze different reactions involving acyl coenzyme a thioesters

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

Crystal structure of rhodopsin: A G protein-coupled receptor

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

Co-evolution of proteins with their interaction partners

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

WNK1, a novel mammalian serine/threonine protein kinase lacking the catalytic lysine in subdomain II

20 June 2018

1 reference

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Gene ontology: tool for the unification of biology

20 June 2018

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20 June 2018

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Molecular tinkering of G protein-coupled receptors: an evolutionary success

20 June 2018

1 reference

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Twilight zone of protein sequence alignments

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

Understanding enzyme superfamilies. Chemistry As the fundamental determinant in the evolution of new catalytic activities

20 June 2018

1 reference

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

20 June 2018

1 reference

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Local alignment statistics

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

The neighbor-joining method: a new method for reconstructing phylogenetic trees

20 June 2018

1 reference

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A novel multigene family may encode odorant receptors: a molecular basis for odor recognition

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2631154

structureViz: linking Cytoscape and UCSF Chimera.

20 June 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0004345

BioLayout--an automatic graph layout algorithm for similarity visualization.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0004345

LGL: creating a map of protein function with an algorithm for visualizing very large biological networks.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0004345

At the periphery of the amidohydrolase superfamily: Bh0493 from Bacillus halodurans catalyzes the isomerization of D-galacturonate to D-tagaturonate.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0004345

Differential use of protease families for invasion by schistosome cercariae

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0004345

Different evolutionary processes shaped the mouse and human olfactory receptor gene families.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0004345

GPCR NaVa database: natural variants in human G protein-coupled receptors

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19190775

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0004345

1 reference

18 August 2017

0 references

1 reference

18 August 2017

1 reference

PMCID

2631154