Detailed view for Rv2196

Basic information

TDR Targets ID: 6980
Mycobacterium tuberculosis, Probable ubiquinol-cytochrome C reductase QcrB (cytochrome B subunit)
Source Database / ID:  Tuberculist 

pI: 8.619 | Length (AA): 549 | MW (Da): 61014 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 9

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

PF13631   Cytochrome b(N-terminal)/b6/petB

Gene Ontology

Mouse over links to read term descriptions.
GO:0016020   membrane  
GO:0016491   oxidoreductase activity  
GO:0009055   electron carrier activity  
GO:0022904   respiratory electron transport chain  

Metabolic Pathways

Oxidative phosphorylation (KEGG)
Global map (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
14 234 1vf5 (A) 14 205 32.00 0.00003 0.36 0.45285 1.47
21 238 1q90 (B) 8 209 28.00 0 0.37 0.450186 1.33
460 540 4rkq (A) 185 247 40.00 0.17 0.77 0.350541 -0.19

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

Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Dormant phase, Dormant phase. hasan murphy
Show/Hide expression data references
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.

Orthologs

Ortholog group members (OG5_128504)

Species Accession Gene Product
Arabidopsis thaliana AT2G07727   cytochrome b
Arabidopsis thaliana ArthMp020   apocytochrome B
Arabidopsis thaliana ArthCp053   cytochrome b6
Babesia bovis BBOV_VI000060   cytochrome b
Dictyostelium discoideum DidioMp12   cytochrome b
Echinococcus granulosus EgrG_900000100   cytochrome B
Homo sapiens 4519   cytochrome b
Mycobacterium leprae ML0879c   Probable Ubiquinol-cytochrome C reductase QcrB (cytochrome B subunit)
Mus musculus 17711   cytochrome b
Mycobacterium tuberculosis Rv2196   Probable ubiquinol-cytochrome C reductase QcrB (cytochrome B subunit)
Mycobacterium ulcerans MUL_3553   ubiquinol-cytochrome C reductase QcrB
Oryza sativa 6450178   apocytochrome b
Oryza sativa 3131403   cytochrome b6
Onchocerca volvulus OVOC10402  
Plasmodium berghei PBANKA_MIT01900   cytochrome b
Plasmodium falciparum mal_mito_3   cytochrome b
Plasmodium knowlesi PKNH_MIT01900   cytochrome b
Plasmodium vivax PVAD80_MIT0003   cytochrome b
Plasmodium yoelii PY00780   Cytochrome b, putative
Plasmodium yoelii PY00774   Cytochrome b, putative
Plasmodium yoelii PY00148   Cytochrome b, putative
Saccharomyces cerevisiae Q0105   cytochrome b
Saccharomyces cerevisiae Q0120   intron-encoded RNA maturase bI4
Schistosoma japonicum Sjp_0314560   ko:K00412 ubiquinol-cytochrome c reductase cytochrome b subunit, putative
Schistosoma mansoni Smp_190460   cytochrome b
Schmidtea mediterranea mk4.075142.00  
Toxoplasma gondii TGME49_322210   apocytochrome b, putative
Toxoplasma gondii TGME49_322200   apocytochrome b, putative
Toxoplasma gondii TGME49_330000   cytochrome b
Theileria parva Tpmp3   cytochrome b
Wolbachia endosymbiont of Brugia malayi Wbm0775   cytochrome b subunit of the bc complex

Essentiality

Rv2196 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2230 this record Mycobacterium tuberculosis essential nmpdr
TGME49_330000 Toxoplasma gondii Essentiality uncertain sidik
TGME49_322200 Toxoplasma gondii Essentiality uncertain sidik
TGME49_322210 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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

Druggability index (range: 0 to 1): 0.5

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Sus scrofa Cytochrome b Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.1549 1 0.5
0.1573 0.9653 1
0.1631 1 1
0.1551 1 0.5
0.0293 0.3883 1
0.0293 0.3331 1
0.1815 1 0.5
0.1515 1 1
0.0293 1 1
0.1521 0.313 1
0.179 1 0.5
0.0245 1 0.5
0.1521 0.313 1
0.0293 0.4306 0.5
0.1815 1 0.5
0.1549 1 0.5
0.1855 1 0.5
0.1782 1 0.5
0.0293 0.3762 1
0.0263 0.2944 0.5
0.1489 1 0.5
0.1655 1 0.5
0.0293 1 0.5
0.1521 0.313 1
0.1521 0.313 1
0.156 1 0.5
0.1211 1 0.5
0.1939 0.5009 1
0.1551 1 0.5
0.0293 0.2855 0.5
0.1496 1 0.5
0.1521 0.313 1
0.1521 0.313 1
0.1521 0.313 1
0.1831 1 0.5
0.1773 1 0.5
0.0293 0.2855 0.5
0.1553 1 0.5
0.1842 1 0.5
0.1521 0.313 1
0.1633 1 1
0.15 1 1
0.0293 1 0.5
0.1521 0.313 1
0.1521 0.313 1
0.1939 0.5009 1
0.1815 1 0.5
0.1726 1 0.5

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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier Rv2196 (Mycobacterium tuberculosis), Probable ubiquinol-cytochrome C reductase QcrB (cytochrome B subunit)
Title for this comment
Comment