PyMod: sequence similarity searches, multiple sequence-structure alignments, and homology modeling within PyMOL (Q34248001)

31 July 2017

PyMod: sequence similarity searches, multiple sequence-structure alignments, and homology modeling within PyMOL (English)

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31 July 2017

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Emanuele Bramucci

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31 July 2017

Alessandro Paiardini

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2

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31 July 2017

Francesco Bossa

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3

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31 July 2017

Stefano Pascarella

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4

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31 July 2017

28 March 2012

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31 July 2017

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31 July 2017

13 Suppl 4

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31 July 2017

S2

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https://scigraph.springernature.com/pub.10.1186/1471-2105-13-s4-s2

31 July 2017

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cites work

SWIFT MODELLER: a Java based GUI for molecular modeling.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

EasyModeller: A graphical interface to MODELLER

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

CPHmodels-3.0--remote homology modeling using structure-guided sequence profiles

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

HHomp--prediction and classification of outer membrane proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

Protein structure prediction on the Web: a case study using the Phyre server

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

Comparative protein structure modeling using Modeller

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

Statistical potential for assessment and prediction of protein structures

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

The HHpred interactive server for protein homology detection and structure prediction

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

MollDE: a homology modeling framework you can click with

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

All are not equal: a benchmark of different homology modeling programs

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

UCSF Chimera--a visualization system for exploratory research and analysis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

MUSCLE: multiple sequence alignment with high accuracy and high throughput

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

T-Coffee: A novel method for fast and accurate multiple sequence alignment

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

Protein structure alignment by incremental combinatorial extension (CE) of the optimal path

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

Identification of common molecular subsequences

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

A general method applicable to the search for similarities in the amino acid sequence of two proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

Basic local alignment search tool

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303726

Within the twilight zone: a sensitive profile-profile comparison tool based on information theory.

6 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2105-13-S4-S2

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

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2105-13-S4-S2

10.1186/1471-2105-13-S4-S2

21 January 2018

Identifiers

DOI

1 reference

journals/bmcbi/BramucciPBP12

31 July 2017

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

31 July 2017

1 reference