Detailed view for TP0326

Basic information

TDR Targets ID: 595801
Treponema pallidum, outer membrane protein
Source Database / ID:  KEGG  

pI: 8.9635 | Length (AA): 853 | MW (Da): 96128 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 1

Druggability Group : DG1

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF01103   Surface antigen
PF07244   Surface antigen variable number repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0071709   GO:membrane assembly  

GO:0019867   outer membrane  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 3 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
31 829 5d0o (A) 24 807 15.00 0 1 1.0133 1.29
33 833 4k3b (A) 25 791 19.00 0 1 0.976889 1.59
285 429 5efr (A) 312 465 30.00 0.0000034 1 0.529338 -0.37

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

No structure availble in the PDB for this protein

Expression

No expression data available for this gene

Orthologs

Ortholog group members (OG5_128023)

Species Accession Gene Product
Arabidopsis thaliana AT5G05520   outer membrane OMP85 family protein
Arabidopsis thaliana AT3G11070   outer membrane OMP85-like protein
Brugia malayi Bm1_40980   CGI-51 protein
Candida albicans CaO19.7358   similar to S. cerevisiae YNL026W
Caenorhabditis elegans CELE_C34E10.1   Protein GOP-3
Chlamydia trachomatis CT_241   outer membrane protein
Dictyostelium discoideum DDB_G0269550   hypothetical protein
Drosophila melanogaster Dmel_CG7639   CG7639 gene product from transcript CG7639-RB
Escherichia coli b0177   BamABCDE complex OM biogenesis outer membrane pore-forming assembly factor
Echinococcus granulosus EgrG_000320200   sorting and assembly machinery component 50
Echinococcus multilocularis EmuJ_000320200   sorting and assembly machinery component 50
Homo sapiens ENSG00000100347   SAMM50 sorting and assembly machinery component
Loa Loa (eye worm) LOAG_05075   like protein gop-3
Mus musculus ENSMUSG00000022437   sorting and assembly machinery component 50 homolog (S. cerevisiae)
Oryza sativa 4339073   Os05g0470800
Saccharomyces cerevisiae YNL026W   Sam50p
Schistosoma japonicum Sjp_0068480   Sorting and assembly machinery component 50 homolog, putative
Schistosoma mansoni Smp_166680   sorting and assembly machinery (sam50) protein
Schmidtea mediterranea mk4.090226.02  
Schmidtea mediterranea mk4.000621.04   Putative sorting and assembly machinery
Trypanosoma congolense TcIL3000_0_51510   outer membrane protein assembly complex, YaeT protein, putative
Treponema pallidum TP0326   outer membrane protein
Wolbachia endosymbiont of Brugia malayi Wbm0054   Outer membrane protein/protective antigen OMA87

Essentiality

TP0326 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b0177 Escherichia coli essential goodall
CELE_C34E10.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_C34E10.1 Caenorhabditis elegans larval arrest wormbase
CELE_C34E10.1 Caenorhabditis elegans slow growth wormbase
CELE_C34E10.1 Caenorhabditis elegans sterile wormbase
YNL026W Saccharomyces cerevisiae inviable yeastgenome
Show/Hide essentiality data references
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model
No druggable targets predicted through repurposing network model

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier TP0326 (Treponema pallidum), outer membrane protein
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