Detailed view for Rv2631

Basic information

TDR Targets ID: 8656
Mycobacterium tuberculosis, Conserved hypothetical protein
Source Database / ID:  Tuberculist 

pI: 7.3893 | Length (AA): 432 | MW (Da): 45528 | 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

PF01139   tRNA-splicing ligase RtcB

Gene Ontology

Mouse over links to read term descriptions.
GO:0008452   RNA ligase activity  
GO:0006396   RNA processing  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 2 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
2 432 4dwr (B) 46 481 54.00 0 1 1.70119 -0.99
2 432 2epg (A) 45 476 55.00 0 1 1.57219 -0.6

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, 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_127467)

Species Accession Gene Product
Babesia bovis BBOV_III007770   uncharacterized protein family UPF0027 family protein
Brugia malayi Bm1_49220   Hypothetical UPF0027 protein F16A11.2 in chromosome I, putative
Caenorhabditis elegans CELE_F16A11.2   Protein F16A11.2
Dictyostelium discoideum DDB_G0278481   UPF0027 family protein
Drosophila melanogaster Dmel_CG9987   CG9987 gene product from transcript CG9987-RA
Escherichia coli b3421   RNA-splicing ligase
Echinococcus granulosus EgrG_001000200   tRNA splicing ligase RtcB
Entamoeba histolytica EHI_169260   hypothetical protein, conserved
Entamoeba histolytica EHI_184560   hypothetical protein, conserved
Echinococcus multilocularis EmuJ_001000200   tRNA splicing ligase RtcB
Giardia lamblia GL50803_23602   RTCB PROTEIN
Homo sapiens ENSG00000100220   RNA 2',3'-cyclic phosphate and 5'-OH ligase
Leishmania braziliensis LbrM.33.0570   hypothetical protein, conserved
Leishmania donovani LdBPK_330580.1   tRNA-splicing ligase RtcB, putative
Leishmania infantum LinJ.33.0580   hypothetical protein, conserved
Leishmania major LmjF.33.0560   hypothetical protein, conserved
Leishmania mexicana LmxM.32.0560   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_10041   hypothetical protein
Loa Loa (eye worm) LOAG_09873   hypothetical protein
Mus musculus ENSMUSG00000001783   RNA 2',3'-cyclic phosphate and 5'-OH ligase
Mycobacterium tuberculosis Rv2631   Conserved hypothetical protein
Neospora caninum NCLIV_002530   UPF0027 protein PH1602, related
Plasmodium berghei PBANKA_0941200   tRNA-splicing ligase RtcB, putative
Plasmodium falciparum PF3D7_1105700   tRNA-splicing ligase RtcB, putative
Plasmodium falciparum PF3D7_1222000   tRNA-splicing ligase RtcB, putative
Plasmodium knowlesi PKNH_0903300   tRNA-splicing ligase RtcB, putative
Plasmodium knowlesi PKNH_1441100   tRNA-splicing ligase RtcB, putative
Plasmodium vivax PVX_123735   hypothetical protein, conserved
Plasmodium vivax PVX_090965   tRNA-splicing ligase RtcB, putative
Plasmodium yoelii PY03374   Uncharacterized protein family UPF0027
Plasmodium yoelii PY03776   Uncharacterized protein family UPF0027
Schistosoma japonicum Sjp_0217320   similar to UPF0027 protein F16A11.2, putative
Schistosoma japonicum Sjp_0102950   similar to UPF0027 protein F16A11.2, putative
Schistosoma japonicum Sjp_0309710   similar to UPF0027 protein F16A11.2, putative
Schistosoma mansoni Smp_074870   hypothetical protein
Schmidtea mediterranea mk4.000891.01   tRNA-splicing ligase RtcB homolog
Trypanosoma brucei gambiense Tbg972.10.13520   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.11190   tRNA-splicing ligase RtcB, putative
Trypanosoma congolense TcIL3000_10_10120   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.509641.20   tRNA-splicing ligase RtcB, putative
Trypanosoma cruzi TcCLB.507711.140   tRNA-splicing ligase RtcB, putative
Toxoplasma gondii TGME49_207450   DNA segment, Chr 10, Wayne State University 52, expressed family protein
Theileria parva TP04_0661   hypothetical protein, conserved
Trichomonas vaginalis TVAG_302250   conserved hypothetical protein
Trichomonas vaginalis TVAG_218190   conserved hypothetical protein
Trichomonas vaginalis TVAG_285750   conserved hypothetical protein
Trichomonas vaginalis TVAG_386070   conserved hypothetical protein
Trichomonas vaginalis TVAG_164050   conserved hypothetical protein
Trichomonas vaginalis TVAG_164040   conserved hypothetical protein

Essentiality

Rv2631 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2677 this record Mycobacterium tuberculosis non-essential nmpdr
Tb927.10.11190 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.11190 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.11190 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.11190 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
b3421 Escherichia coli non-essential goodall
CELE_F16A11.2 Caenorhabditis elegans slow growth wormbase
TGME49_207450 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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): 0.2

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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Gene identifier Rv2631 (Mycobacterium tuberculosis), Conserved hypothetical protein
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