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TMBpro specifications


Unique identifier OMICS_07276
Name TMBpro
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for TMBpro

TMBpro citations


Computational Approaches for Revealing the Structure of Membrane Transporters: Case Study on Bilitranslocase

Comput Struct Biotechnol J
PMCID: 5312651
PMID: 28228927
DOI: 10.1016/j.csbj.2017.01.008

[…] n recognition and then evaluate the prediction probabilities (e.g. for helices HMMTOP , ENSEMBLE , Philius , TMHMM , MEMSAT-SVM , TOPCONS , PredαTM and for barrels B2TMPRED , ConBBPRED , PRED-TMBB , TMBpro , PredβTM , TMBHMM etc.). Machine learning approaches are best for solving problems in the absence of general theories when there is a large amount of data with noisy patterns and are thus ide […]


FmvB: A Francisella tularensis Magnesium Responsive Outer Membrane Protein that Plays a Role in Virulence

PLoS One
PMCID: 4981453
PMID: 27513341
DOI: 10.1371/journal.pone.0160977

[…] ort processes, as outer membrane transport proteins in other bacteria are known to contain large extracellular loops []. Three-dimensional structural predictions of FmvA and FmvB were generated using TMBpro (Fig A in ). For FmvA, 8 beta strands were predicted and for FmvB 9 beta strands were predicted. However, for both proteins, TMBpro predicted long N-terminal unstructured regions (Fig A in ) th […]


A 3 Dimensional Trimeric β Barrel Model for Chlamydia MOMP Contains Conserved and Novel Elements of Gram Negative Bacterial Porins

PLoS One
PMCID: 3723809
PMID: 23935908
DOI: 10.1371/journal.pone.0068934
call_split See protocol

[…] ember 2, 2011. This consensus sequence is identical at the amino acid level to that of isolate CS-362-07 (GenBank accession DQ116399). This sequence, excluding the first 22 residues, was submitted to TMBpro server ( . Additional submissions were made excluding residues (i) A226–A238 and L290 - D316, (ii) A64–A 83 and L290 – D316 or (iii) A64 – P85, K152 – A1 […]


Fine Analysis of Genetic Diversity of the tpr Gene Family among Treponemal Species, Subspecies and Strains

PLoS Negl Trop Dis
PMCID: 3656149
PMID: 23696912
DOI: 10.1371/journal.pntd.0002222
call_split See protocol

[…] alignment program . GenBank accession numbers are listed in . Structural homologs were identified using the 3D jury approach . Structural (3D) models for TprC, TprD and TprI were generated using the TMBpro algorithm . The orientation of the predicted loops in the TMBpro models, surface exposed vs. periplasmic, was determined as previously described by Randall et al. . Signal peptide predictions w […]


A graph theoretic approach for classification and structure prediction of transmembrane β barrel proteins

BMC Genomics
PMCID: 3394416
PMID: 22537300
DOI: 10.1186/1471-2164-13-S2-S5
call_split See protocol

[…] We compare our folding prediction accuracy to TMBpro [] and TMBETAPRED-RBF []. We compare our classification results to Freeman et al. [], TMBETAPRED-RBF [], PRED-TMBB [] and transFold []. TMBpro and TMBETAPRED-RBF results are executed from their […]


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TMBpro institution(s)
School of Information and Computer Sciences, University of California, Irvine, CA, USA

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