DOMpro specifications


Unique identifier OMICS_07070
Name DOMpro
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 1.0
Stability Stable
Maintained Yes

DOMpro in publications

PMCID: 4621036
PMID: 26502173
DOI: 10.1371/journal.pone.0141541

[…] linker regions based solely on amino acid sequence composition information. pfam[–], everest[,] adda[], and fiefdom[] focus on domain boundaries prediction based on homologous alignments. chopnet[],dompro[], domnet[], pprodo[], drop[] and dobo[] use different machine learning methods to identify domain boundaries., some methods such as snapdragon[], rosettadom[] and opus-dom[] first constructed […]

PMCID: 4290662
PMID: 25521329
DOI: 10.1186/1471-2105-15-S16-S8

[…] and to identify inter-domain segments containing linear motifs., a typical alignment/homology-based method which requires the use of psi-blast [] to generate evolutionary and homology information is dompro []. dompro was independently evaluated along with 12 other predictors in the critical assessment of fully automated structure prediction 4 (cafasp-4) [,] and it was ranked among the top ab […]

PMCID: 3815135
PMID: 24223932
DOI: 10.1371/journal.pone.0079367

[…] epiya-containing domains of bacterial effector proteins is a conserved feature., the domain boundaries of caga from h. pylori strain 26695 (genbank id: aad07614) were first predicted using dompro [] as 1 - 236 (n-terminal domain), 237 - 891 (middle domain) and 892 - 1186 (c-terminal domain). these boundaries were close to those delimited by the previous limited proteolysis studies […]

PMCID: 3826066
PMID: 26038437
DOI: 10.1038/emi.2013.65

[…] 10fniii is located on a loop/turn connecting two β-strands. similar to the fniii repeats of fn, the secondary structure of flpa-d2 contains β-strands that alternate with disordered loop domains (dompro 1.0 and disembl). to assess whether flpa fn-binding is localized to the β-strands (k153–r157) or disordered loops within the n150–v164 span, two more peptides were synthesized (p6 and p7) (). […]

PMCID: 3563215
PMID: 22987736
DOI: 10.1002/prot.24181

[…] approach and methods based on building alpha-carbon models and compare performance with a length-based predictor, a homology search method and four published sequence-based predictors: domcut, dompro, dlp-svm, and scooby-domain. we show that the kernel-smoothing method is significantly better than the other ab initio predictors when both single-domain and multidomain targets are considered […]

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