Detailed view for Rv0202c

Basic information

TDR Targets ID: 6474
Mycobacterium tuberculosis, Probable conserved transmembrane transport protein MmpL11
Source Database / ID:  Tuberculist 

pI: 9.4778 | Length (AA): 966 | MW (Da): 103502 | Paralog Number: 4

Signal peptide: Y | GPI Anchor: | Predicted trans-membrane segments: 12

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

PF03176   MMPL family

Gene Ontology

Mouse over links to read term descriptions.
GO:0016021   integral to membrane  
GO:0016020   membrane  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
7 334 5khn (B) 13 430 29.00 0.00063 0.96 0.367245 0.89
27 698 2dhh (A) 203 1032 16.00 0 1 0.446152 1.32
95 333 3ne5 (A) 799 1038 16.00 0 0.82 0.291912 0.5
424 511 4y0l (A) 424 511 99.99 0 1 1.2358 -1.54

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:

PDB tag
  • 4Y0L:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Dormant phase. murphy
Show/Hide expression data references
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.

Orthologs

Ortholog group members (OG5_131048)

Species Accession Gene Product
Entamoeba histolytica EHI_030870   MmpL efflux pump, putative
Entamoeba histolytica EHI_065680   MmpL efflux pump, putative
Entamoeba histolytica EHI_000920   MmpL efflux pump, putative
Mycobacterium leprae ML2620c   POSSIBLE CONSERVED TRANSMEMBRANE TRANSPORT PROTEIN MMPL3
Mycobacterium leprae ML1231   PROBABLE CONSERVED TRANSMEMBRANE TRANSPORT PROTEIN MMPL10
Mycobacterium leprae ML2617c   PROBABLE CONSERVED TRANSMEMBRANE TRANSPORT PROTEIN MMPL11
Mycobacterium tuberculosis Rv0206c   Possible conserved transmembrane transport protein MmpL3
Mycobacterium tuberculosis Rv1522c   Probable conserved transmembrane transport protein MmpL12
Mycobacterium tuberculosis Rv0202c   Probable conserved transmembrane transport protein MmpL11
Mycobacterium tuberculosis Rv3823c   Conserved integral membrane transport protein MmpL8
Mycobacterium tuberculosis Rv1183   Probable conserved transmembrane transport protein MmpL10
Mycobacterium ulcerans MUL_1096   transmembrane transport protein MmpL3
Mycobacterium ulcerans MUL_1909   transmembrane transport protein
Mycobacterium ulcerans MUL_1092   transmembrane transport protein MmpL11
Trypanosoma cruzi TcCLB.508723.10   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.509791.80   hypothetical protein
Treponema pallidum TP0790   antibiotic transport protein

Essentiality

Rv0202c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu204 this record Mycobacterium tuberculosis non-essential nmpdr
mtu3890 Mycobacterium tuberculosis non-essential nmpdr
Show/Hide essentiality data references
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • 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.

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

Druggability index (range: 0 to 1): 0.1

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 Rv0202c (Mycobacterium tuberculosis), Probable conserved transmembrane transport protein MmpL11
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