Automated classification of tailed bacteriophages according to their neck organization. (Q35185538)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25428721%20AND%20SRC:MED&resulttype=core&format=json

23 February 2020

title

Automated classification of tailed bacteriophages according to their neck organization (English)

1 reference

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23 February 2020

0 references

1 reference

1 reference

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23 February 2020

1 reference

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23 February 2020

Anne Lopes

1 reference

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23 February 2020

Raphaël Guérois

series ordinal

1 reference

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23 February 2020

Sophie Zinn-Justin

series ordinal

1 reference

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23 February 2020

language of work or name

English

0 references

publication date

27 November 2014

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23 February 2020

1 reference

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23 February 2020

volume

1 reference

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23 February 2020

page(s)

1027

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Metagenomic species profiling using universal phylogenetic marker genes

23 February 2020

cites work

1 reference

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Phage cluster relationships identified through single gene analysis.

28 July 2018

1 reference

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Whole genome sequencing and comparative genomic analyses of two Vibrio cholerae O139 Bengal-specific Podoviruses to other N4-like phages reveal extensive genetic diversity

28 July 2018

1 reference

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The Molecular Architecture of the Bacteriophage T4 Neck

28 July 2018

1 reference

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Phage morphology recapitulates phylogeny: the comparative genomics of a new group of myoviruses

28 July 2018

1 reference

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Capsid Structure and Its Stability at the Late Stages of Bacteriophage SPP1 Assembly

28 July 2018

1 reference

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Genome gating in tailed bacteriophage capsids

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Viral connectors for DNA encapsulation

28 July 2018

1 reference

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Structural Conservation of the Myoviridae Phage Tail Sheath Protein Fold

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Genomics of Bacterial and Archaeal Viruses: Dynamics within the Prokaryotic Virosphere

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Solution structure of gp17 from the Siphoviridae bacteriophage SPP1: insights into its role in virion assembly

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Three-dimensional structure of a viral genome-delivery portal vertex

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Peering down the barrel of a bacteriophage portal: the genome packaging and release valve in p22

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Detection of novel recombinases in bacteriophage genomes unveils Rad52, Rad51 and Gp2.5 remote homologs.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

ETE: a python Environment for Tree Exploration

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Genome packaging in viruses

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The crystal structure of bacteriophage HK97 gp6: defining a large family of head-tail connector proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Classification of Myoviridae bacteriophages using protein sequence similarity

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Comparative genome analysis of Listeria bacteriophages reveals extensive mosaicism, programmed translational frameshifting, and a novel prophage insertion site

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Structural basis for the nuclease activity of a bacteriophage large terminase

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Structure of bacteriophage SPP1 head-to-tail connection reveals mechanism for viral DNA gating

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The tail sheath structure of bacteriophage T4: a molecular machine for infecting bacteria

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

An unexpected twist in viral capsid maturation

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The structure of the phage T4 DNA packaging motor suggests a mechanism dependent on electrostatic forces

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Genotypic and phenotypic diversity among induced, stx2-carrying bacteriophages from environmental Escherichia coli strains

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Portal protein diversity and phage ecology.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Structural framework for DNA translocation via the viral portal protein

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The marine viromes of four oceanic regions

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Structural changes of bacteriophage phi29 upon DNA packaging and release

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

5500 Phages examined in the electron microscope

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The HHpred interactive server for protein homology detection and structure prediction

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Structural and functional similarities between the capsid proteins of bacteriophages T4 and HK97 point to a common ancestry

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Protein homology detection by HMM-HMM comparison

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Three-dimensional rearrangement of proteins in the tail of bacteriophage T4 on infection of its host

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

28 July 2018

Global phage diversity

1 reference

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Structure of a viral DNA gatekeeper at 10 A resolution by cryo-electron microscopy

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The dilemma of phage taxonomy illustrated by comparative genomics of Sfi21-like Siphoviridae in lactic acid bacteria

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Imbroglios of viral taxonomy: genetic exchange and failings of phenetic approaches

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The Phage Proteomic Tree: a genome-based taxonomy for phage

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Topologically linked protein rings in the bacteriophage HK97 capsid

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Protein secondary structure prediction based on position-specific scoring matrices

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Structure of the bacteriophage P2 tail

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Mechanism of length determination in bacteriophage lambda tails

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Symmetry mismatch and DNA packaging in large bacteriophages

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Development and application of a method for the purification of free shigatoxigenic bacteriophage from environmental samples.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Long noncontractile tail machines of bacteriophages.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

A common evolutionary origin for tailed-bacteriophage functional modules and bacterial machineries

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

ACLAME: a CLAssification of Mobile genetic Elements, update 2010

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The phage major tail protein structure reveals a common evolution for long-tailed phages and the type VI bacterial secretion system

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Comparative genomics and evolutionary trajectories of viral ATP dependent DNA-packaging systems

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The headful packaging nuclease of bacteriophage T4.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Unifying classical and molecular taxonomic classification: analysis of the Podoviridae using BLASTP-based tools

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

DNA poised for release in bacteriophage phi29.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Reticulate representation of evolutionary and functional relationships between phage genomes

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Role of gene 10 protein in the hierarchical assembly of the bacteriophage P22 portal vertex structure

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The NMR structure of the gpU tail-terminator protein from bacteriophage lambda: identification of sites contributing to Mg(II)-mediated oligomerization and biological function

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Improved isolation of undersampled bacteriophages: finding of distant terminase genes

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Structural organisation of the head-to-tail interface of a bacterial virus

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Virus maturation involving large subunit rotations and local refolding

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

The solution structure of bacteriophage lambda protein W, a small morphogenetic protein possessing a novel fold

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4362835

Head assembly steps controlled by genes F and W in bacteriophage lambda

27 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25428721

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Purification and characterization of the major protein and the terminator protein of the bacteriophage lambda tail

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25428721

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Comments on the arrangement of the morphogenetic genes of bacteriophage lambda

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25428721

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2164-15-1027

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25428721%20AND%20SRC:MED&resulttype=core&format=json

23 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25428721%20AND%20SRC:MED&resulttype=core&format=json

23 February 2020

PubMed publication ID

25428721

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25428721%20AND%20SRC:MED&resulttype=core&format=json