Handle URI:
http://hdl.handle.net/10754/596795
Title:
Improving your target-template alignment with MODalign.
Authors:
Barbato, Alessandro; Benkert, Pascal; Schwede, Torsten; Tramontano, Anna; Kosinski, Jan
Abstract:
SUMMARY: MODalign is an interactive web-based tool aimed at helping protein structure modelers to inspect and manually modify the alignment between the sequences of a target protein and of its template(s). It interactively computes, displays and, upon modification of the target-template alignment, updates the multiple sequence alignments of the two protein families, their conservation score, secondary structure and solvent accessibility values, and local quality scores of the implied three-dimensional model(s). Although it has been designed to simplify the target-template alignment step in modeling, it is suitable for all cases where a sequence alignment needs to be inspected in the context of other biological information. AVAILABILITY AND IMPLEMENTATION: Freely available on the web at http://modorama.biocomputing.it/modalign. Website implemented in HTML and JavaScript with all major browsers supported. CONTACT: jan.kosinski@uniroma1.it.
Citation:
Barbato A, Benkert P, Schwede T, Tramontano A, Kosinski J (2012) Improving your target-template alignment with MODalign. Bioinformatics 28: 1038–1039. Available: http://dx.doi.org/10.1093/bioinformatics/bts070.
Publisher:
Oxford University Press (OUP)
Journal:
Bioinformatics
KAUST Grant Number:
KUK-I1-012-43
Issue Date:
4-Feb-2012
DOI:
10.1093/bioinformatics/bts070
PubMed ID:
22308148
PubMed Central ID:
PMC3315710
Type:
Article
ISSN:
1367-4803; 1460-2059
Sponsors:
KAUST Award No. KUK-I1-012-43 made by King Abdullah University of Science and Technology (KAUST), Fondazione Roma, the Italian Ministry of Health, Contract No. onc_ord 25/07, FIRB PROTEOMICA, and European Molecular Biology Organization (EMBO) long-term fellowship to J.K.
Appears in Collections:
Publications Acknowledging KAUST Support

Full metadata record

DC FieldValue Language
dc.contributor.authorBarbato, Alessandroen
dc.contributor.authorBenkert, Pascalen
dc.contributor.authorSchwede, Torstenen
dc.contributor.authorTramontano, Annaen
dc.contributor.authorKosinski, Janen
dc.date.accessioned2016-02-21T08:50:50Zen
dc.date.available2016-02-21T08:50:50Zen
dc.date.issued2012-02-04en
dc.identifier.citationBarbato A, Benkert P, Schwede T, Tramontano A, Kosinski J (2012) Improving your target-template alignment with MODalign. Bioinformatics 28: 1038–1039. Available: http://dx.doi.org/10.1093/bioinformatics/bts070.en
dc.identifier.issn1367-4803en
dc.identifier.issn1460-2059en
dc.identifier.pmid22308148en
dc.identifier.doi10.1093/bioinformatics/bts070en
dc.identifier.urihttp://hdl.handle.net/10754/596795en
dc.description.abstractSUMMARY: MODalign is an interactive web-based tool aimed at helping protein structure modelers to inspect and manually modify the alignment between the sequences of a target protein and of its template(s). It interactively computes, displays and, upon modification of the target-template alignment, updates the multiple sequence alignments of the two protein families, their conservation score, secondary structure and solvent accessibility values, and local quality scores of the implied three-dimensional model(s). Although it has been designed to simplify the target-template alignment step in modeling, it is suitable for all cases where a sequence alignment needs to be inspected in the context of other biological information. AVAILABILITY AND IMPLEMENTATION: Freely available on the web at http://modorama.biocomputing.it/modalign. Website implemented in HTML and JavaScript with all major browsers supported. CONTACT: jan.kosinski@uniroma1.it.en
dc.description.sponsorshipKAUST Award No. KUK-I1-012-43 made by King Abdullah University of Science and Technology (KAUST), Fondazione Roma, the Italian Ministry of Health, Contract No. onc_ord 25/07, FIRB PROTEOMICA, and European Molecular Biology Organization (EMBO) long-term fellowship to J.K.en
dc.publisherOxford University Press (OUP)en
dc.rightsThis is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.en
dc.rights.urihttp://creativecommons.org/licenses/by-nc/3.0en
dc.subject.meshInterneten
dc.subject.meshSoftwareen
dc.titleImproving your target-template alignment with MODalign.en
dc.typeArticleen
dc.identifier.journalBioinformaticsen
dc.identifier.pmcidPMC3315710en
dc.contributor.institutionUniversita degli Studi di Roma La Sapienza, Rome, Italyen
dc.contributor.institutionBiozentrum University of Basel, Basel, Switzerlanden
dc.contributor.institutionSwiss Institute of Bioinformatics, Geneve, Switzerlanden
dc.contributor.institutionIstituto Italiano di Tecnologia, Genoa, Italyen
kaust.grant.numberKUK-I1-012-43en

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