Detailed view for Rv2397c

Basic information

TDR Targets ID: 5832
Mycobacterium tuberculosis, Sulfate-transport ATP-binding protein ABC transporter CysA1
Source Database / ID:  Tuberculist 

pI: 9.5702 | Length (AA): 351 | MW (Da): 37444 | Paralog Number: 1

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

PF00005   ABC transporter
PF12857   TOBE-like domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0043190   ATP-binding cassette (ABC) transporter complex  
GO:0016020   membrane  
GO:0005215   transporter activity  
GO:0000166   nucleotide binding  
GO:0017111   nucleoside-triphosphatase activity  
GO:0016887   ATPase activity  
GO:0015419   sulfate transmembrane-transporting ATPase activity  
GO:0005524   ATP binding  
GO:0008272   sulfate transport  
GO:0006810   transport  

Metabolic Pathways

Sulfur metabolism (KEGG)
ABC transporters (KEGG)

Structural information

Modbase 3D models:

There are 5 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
2 327 1z47 (A) 12 349 43.00 0 1 1.44787 -0.45
3 346 2awn (A) 2 365 31.00 0 1 1.07316 0.61
5 218 5xu1 (A) 5 226 34.00 0 1 1.09829 -1.17
5 214 3tif (A) 2 224 40.00 0 1 1.13339 -1.11
10 241 2onk (A) 7 232 45.00 0 1 1.25117 -0.68

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
Upper 60-80% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Dormant phase. 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_127485)

Species Accession Gene Product
Escherichia coli b1441   putative spermidine/putrescine transporter subunit
Escherichia coli b1126   polyamine transporter subunit
Escherichia coli b0855   putrescine transporter subunit: ATP-binding component of ABC superfamily
Escherichia coli b2422   sulfate/thiosulfate transporter subunit
Escherichia coli b0262   CP4-6 prophage
Mycobacterium tuberculosis Rv1859   Probable molybdenum-transport ATP-binding protein ABC transporter ModC
Mycobacterium tuberculosis Rv2397c   Sulfate-transport ATP-binding protein ABC transporter CysA1
Mycobacterium ulcerans MUL_3658   sulfate-transport ABC transporter ATP-binding protein CysA1
Mycobacterium ulcerans MUL_3018   molybdenum-transport ABC transporter ATP-binding protein ModC
Schmidtea mediterranea mk4.045067.00  
Treponema pallidum TP0142   thiamine ABC transporter, ATP-binding protein
Treponema pallidum TP0652   spermidine/putrescine ABC transporter, ATP-binding protein (potA)
Trichomonas vaginalis TVAG_254070   abca8, putative
Wolbachia endosymbiont of Brugia malayi Wbm0677   ABC-type spermidine/putrescine transport system, ATPase component

Essentiality

Rv2397c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2438 this record Mycobacterium tuberculosis essential nmpdr
mtu1889 Mycobacterium tuberculosis non-essential nmpdr
b0262 Escherichia coli non-essential goodall
b0855 Escherichia coli non-essential goodall
b1126 Escherichia coli non-essential goodall
b1441 Escherichia coli non-essential goodall
b2422 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.

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
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 Rv2397c (Mycobacterium tuberculosis), Sulfate-transport ATP-binding protein ABC transporter CysA1
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