Detailed view for Rv1901

Basic information

TDR Targets ID: 5748
Mycobacterium tuberculosis, Probable CinA-like protein CinA
Source Database / ID:  Tuberculist 

pI: 5.5283 | Length (AA): 430 | MW (Da): 45512 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 0

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

PF00994   Probable molybdopterin binding domain
PF02464   Competence-damaged protein

Gene Ontology

Mouse over links to read term descriptions.
GO:0006777   Mo-molybdopterin cofactor biosynthetic process  

Metabolic Pathways

Nicotinate and nicotinamide metabolism (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
6 419 4ct9 (B) 3 392 36.00 0 1 1.26879 0.34
6 419 4uuw (A) 3 392 31.00 0 1 1.26999 0.15
7 86 3pzy (A) 6 88 39.00 0.4 0.99 0.607046 -0.62
265 425 2a9s (A) 3 166 37.00 0 1 0.940619 -1.36

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 20-40% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Dormant phase. hasan
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_128220)

Species Accession Gene Product
Candida albicans CaO19.8659   similar to hypothetical protein
Candida albicans CaO19.5757   similar to S. cerevisiae YMR178W
Candida albicans CaO19.1057   similar to hypothetical protein
Candida albicans CaO19.13180   similar to S. cerevisiae YMR178W
Escherichia coli b2249   inactive PncC family protein
Escherichia coli b2700   nicotinamide-nucleotide amidohydrolase
Entamoeba histolytica EHI_090260   competence/damage-inducible protein, putative
Mycobacterium leprae ML2015c   PROBABLE CINA-LIKE PROTEIN CINA
Mycobacterium tuberculosis Rv1901   Probable CinA-like protein CinA
Mycobacterium ulcerans MUL_2956   competence damage-inducible protein A
Saccharomyces cerevisiae YMR178W   hypothetical protein
Schistosoma mansoni Smp_008370   molybdopterin-binding
Schmidtea mediterranea mk4.044980.02  

Essentiality

Rv1901 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1932 this record Mycobacterium tuberculosis non-essential nmpdr
b2249 Escherichia coli non-essential goodall
b2700 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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.

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User comments

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Gene identifier Rv1901 (Mycobacterium tuberculosis), Probable CinA-like protein CinA
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