Detailed view for Rv1314c

Basic information

TDR Targets ID: 7867
Mycobacterium tuberculosis, Conserved protein
Source Database / ID:  Tuberculist 

pI: 5.9884 | Length (AA): 193 | MW (Da): 20694 | 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

PF01923   Cobalamin adenosyltransferase

Gene Ontology

Mouse over links to read term descriptions.
GO:0005524   ATP binding  
GO:0009236   cobalamin biosynthetic process  

Metabolic Pathways

Porphyrin and chlorophyll metabolism (KEGG)
Global map (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
29 188 2g2d (A) 29 188 99.99 0 1 2.09562 -1.75

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
  • 2G2D:
  • 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
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_130133)

Species Accession Gene Product
Caenorhabditis elegans CELE_C26E6.11   Protein MMAB-1
Dictyostelium discoideum DDB_G0281875   hypothetical protein
Dictyostelium discoideum DDB_G0279905   hypothetical protein
Homo sapiens ENSG00000139428   methylmalonic aciduria (cobalamin deficiency) cblB type
Leishmania braziliensis LbrM.24.2320   hypothetical protein, conserved
Leishmania donovani LdBPK_242330.1   ATP:cob(I)alamin adenosyltransferase, putative
Leishmania infantum LinJ.24.2330   hypothetical protein, conserved
Leishmania major LmjF.24.2240   hypothetical protein, conserved
Leishmania mexicana LmxM.24.2240   hypothetical protein, conserved
Mycobacterium leprae ML1149c   conserved hypothetical protein
Mus musculus ENSMUSG00000029575   methylmalonic aciduria (cobalamin deficiency) type B homolog (human)
Mycobacterium tuberculosis Rv1314c   Conserved protein
Mycobacterium ulcerans MUL_3951   cobalamin adenosyltransferase
Schmidtea mediterranea mk4.001795.05  
Trichomonas vaginalis TVAG_237810   Cob(I)yrinic acid a,C-diamide adenosyltransferase, mitochondrial precursor, putative

Essentiality

Rv1314c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1336 this record Mycobacterium tuberculosis non-essential nmpdr
Show/Hide essentiality data references
  • 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.
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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

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.

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 Rv1314c (Mycobacterium tuberculosis), Conserved protein
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