REPRO protocols

View REPRO computational protocol

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Associated diseases

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REPRO specifications

Information


Unique identifier OMICS_10029
Name REPRO
Interface Web user interface
Restrictions to use None
Input data Protein sequence
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Publications for REPRO

REPRO in pipeline

2010
PMCID: 2935858
PMID: 20631153
DOI: 10.1093/hmg/ddq299

[…] identified as the top-score structural homolog hit and the structure of two consecutive wd40 domains was generated. two structural domains in wdr36 protein sequence were confirmed with the program repro (). amino acid sequences of mice wdr36 and c. elegans unc-78/aip1 were aligned with promals3d (http://prodata.swmed.edu/promals3d). individual wd40 repeat motifs and utp21 c-terminal domain […]


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REPRO in publications

 (4)
PMCID: 4096751
PMID: 24997568
DOI: 10.1186/1756-0500-7-435

[…] []. sequence repeats were predicted using rep (http://www.bork.embl.de/~andrade/papers/rep/search.html) [], hhrep (http://toolkit.tuebingen.mpg.de/hhrep) [] and repro (http://www.ibi.vu.nl/programs/reprowww/) []. fold recognition was performed using fugue (http://tardis.nibio.go.jp/fugue/) and hhpred (http://toolkit.tuebingen.mpg.de/hhpred/, with the hmm […]

PMCID: 3402919
PMID: 22536906
DOI: 10.1186/1471-2105-13-S3-S8

[…] finding trs in proteins are based on detecting sub-optimal alignments in the self-alignment matrix generated by the smith-waterman algorithm. some examples are internal repeat finder [,], radar [], repro [,] and trust - tracking repeats using significance and transitivity [], even if they often detect both tandem and interspersed repeats. more recently newman and cooper proposed xstream [], […]

PMCID: 2935422
PMID: 20823309
DOI: 10.1093/bioinformatics/btq371

[…] are not good tools to detect solenoid repeats., in recent years, several methods have been proposed to identify solenoid repeats. some of them are based on self-alignment of the sequence such as repro (george et al., ), radar (heger et al., ), trust (szklarczyk et al., ), hhrep (soding et al., ) and hhrepid (biegert et al., ). hhrep and hhrepid utilized hidden markov model comparison […]

PMCID: 2571106
PMID: 18828902
DOI: 10.1186/1471-2180-8-165

[…] patterns of s-layer proteins of l. brevis were performed by the kyte-doolittle method [] with protscale [] on the expasy server. repeat structures from s-layer proteins were localized by repro [,]. the comparison matrix used in the protein repeat analysis was blosum62 (gap open penalty, 12; gap extension penalty, 1). sequence alignment analyses of l. brevis s-layer proteins […]


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REPRO institution(s)
European Molecular Biology Laboratory, Heidelberg, Germany

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