STRAP statistics

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Citations per year

Number of citations per year for the bioinformatics software tool STRAP
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Tool usage distribution map

This map represents all the scientific publications referring to STRAP per scientific context
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Associated diseases

This word cloud represents STRAP usage per disease context
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Popular tool citations

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Protocols

STRAP specifications

Information


Unique identifier OMICS_03657
Name STRAP
Alternative name STRuctural Alignments of Proteins
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
License GNU General Public License version 2.0
Computer skills Medium
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Christoph Gille

Publications for STRuctural Alignments of Proteins

STRAP citations

 (29)
library_books

Crystal structures of the mitochondrial deacylase Sirtuin 4 reveal isoform specific acyl recognition and regulation features

2017
Nat Commun
PMCID: 5686155
PMID: 29138502
DOI: 10.1038/s41467-017-01701-2

[…] Structure-based sequence alignments were created using STRAP with the integrated Aligner3D algorithm, and manual editing and phylogenetic tree generation were done with BioEdit. Conservation levels were mapped on the xSirt4 structure surface using ConSurf […]

library_books

4 alkyl L (Dehydro)proline biosynthesis in actinobacteria involves N terminal nucleophile hydrolase activity of γ glutamyltranspeptidase homolog for C C bond cleavage

2017
Nat Commun
PMCID: 5519988
PMID: 28706296
DOI: 10.1038/ncomms16109

[…] uced proteins were compared with other known proteins in the databases using available BLAST methods (http://blast.ncbi.nlm.nih.gov/Blast.cgi). Amino acid sequence alignments were performed using the Strap program (http://www.bioinformatics.org/strap/). Homology modelling of the Ant6 structure was conducted using the I-TASSER online server (http://zhanglab.ccmb.med.umich.edu/I-TASSER/). Sequence s […]

call_split

CLD1 Reverses the Ubiquinone Insufficiency of Mutant cat5/coq7 in a Saccharomyces cerevisiae Model System

2016
PLoS One
PMCID: 5014327
PMID: 27603010
DOI: 10.1371/journal.pone.0162165
call_split See protocol

[…] structure 2CJP.A), served as the model-building template (alignment length 335 amino acids, double-sided Z-score 28.6). The catalytic triad of Cld1p (H424, D392, S230) was originally identified using STRAP [], which facilitated the structure-guided alignment of several hundred α/β hydrolase fold-containing proteins, and the authenticity of this triad has now been confirmed experimentally []. […]

library_books

Highly Effective Inhibition of Biofilm Formation by the First Metagenome Derived AI 2 Quenching Enzyme

2016
Front Microbiol
PMCID: 4942472
PMID: 27468282
DOI: 10.3389/fmicb.2016.01098

[…] tive amino acid (aa) changes and their effects on the predicted protein structure. The aa sequences obtained from mutated non-functional QQ-2 derivatives were compared with homologous sequences using STRAP—Interactive Structure based Sequences Alignment Program (http://www.bioinformatics.org/strap/), followed by prediction of secondary structures, active sites and strictly conserved residues (≥90% […]

library_books

Characterization of Five Novel Brevibacillus Bacteriophages and Genomic Comparison of Brevibacillus Phages

2016
PLoS One
PMCID: 4909266
PMID: 27304881
DOI: 10.1371/journal.pone.0156838

[…] enterica serovar typhimurium) [1ADR_A, 2R1J_L, 3JXB_C] []. HHPred [] and RaptorX [–] were used to predict tertiary structure and binding sites. These predicted structures were then superimposed using STRAP [] and compared using NCBI’s Cn3D []. […]

library_books

Biochemical and structural characterization of a novel ubiquitin conjugating enzyme E2 from Agrocybe aegeria reveals Ube2w family specific properties

2015
Sci Rep
PMCID: 4630614
PMID: 26525192
DOI: 10.1038/srep16056

[…] the CCP4 program suite. Statistics from the data collection and structure refinement are summarized in . Structural comparison and structure-based sequence alignment were performed using the program STRAP. All figures representing the UbcA1 structure were generated using the molecular visualization program PyMol. […]


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STRAP institution(s)
Institute for Biochemistry, Charité University Hospital, Humboldt University Berlin, Germany

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