Detailed view for Rv3525c

Basic information

TDR Targets ID: 9166
Mycobacterium tuberculosis, Possible siderophore-binding protein
Source Database / ID:  Tuberculist 

pI: 5.8811 | Length (AA): 174 | MW (Da): 17665 | 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

PF00132   Bacterial transferase hexapeptide (six repeats)

Gene Ontology

Mouse over links to read term descriptions.
GO:0016740   transferase activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
1 174 1v3w (A) 1 173 39.00 0 1 1.6111 -1.3

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 80-100% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Dormant phase. hasan
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_129074)

Species Accession Gene Product
Arabidopsis thaliana AT1G19580   gamma carbonic anhydrase 1
Arabidopsis thaliana AT1G47260   gamma carbonic anhydrase 2
Dictyostelium discoideum DDB_G0278597   bacterial transferase hexapeptide repeat-containing protein
Dictyostelium discoideum DDB_G0288155   trimeric LpxA-like domain-containing protein
Escherichia coli b1400   putative hexapeptide repeat acetyltransferase
Escherichia coli b0035   stimulator of CaiD and CaiB enzyme activities
Escherichia coli b3279   bacterial transferase hexapeptide domain protein
Entamoeba histolytica EHI_004840   bacterial transferase hexapeptide family protein
Leishmania braziliensis LbrM.19.0290   hypothetical protein, conserved
Leishmania donovani LdBPK_110030.1   Bacterial transferase hexapeptide (six repeats), putative
Leishmania infantum LinJ.11.0030   hypothetical protein, conserved
Leishmania major LmjF.11.0030   hypothetical protein, conserved
Leishmania mexicana LmxM.11.0030   hypothetical protein, conserved
Mycobacterium tuberculosis Rv3525c   Possible siderophore-binding protein
Mycobacterium ulcerans MUL_4088   hypothetical protein
Oryza sativa 4351619   Os12g0169700
Oryza sativa 4344079   Os07g0642900
Schmidtea mediterranea mk4.053213.02  
Trypanosoma brucei gambiense Tbg972.11.8170   hypothetical protein, conserved
Trypanosoma brucei Tb11.02.5070b   hypothetical protein, conserved
Trypanosoma congolense TcIL3000_0_00830   Bacterial transferase hexapeptide (six repeats), putative
Trypanosoma cruzi TcCLB.510381.30   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506905.30   hypothetical protein, conserved
Wolbachia endosymbiont of Brugia malayi Wbm0289   carbonic anhydrase

Essentiality

Rv3525c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3586 this record Mycobacterium tuberculosis non-essential nmpdr
Tb11.02.5070 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.02.5070 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.02.5070 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.02.5070 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b0035 Escherichia coli non-essential goodall
b1400 Escherichia coli non-essential goodall
b3279 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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

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
Species Known druggable target Linked compounds Reference
Methanosarcina thermophila Carbonic anhydrase Compounds References
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 Rv3525c (Mycobacterium tuberculosis), Possible siderophore-binding protein
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