Detailed view for Rv3419c

Basic information

TDR Targets ID: 6128
Mycobacterium tuberculosis, Probable O-sialoglycoprotein endopeptidase Gcp (glycoprotease)
Source Database / ID:  Tuberculist 

pI: 5.3426 | Length (AA): 344 | MW (Da): 35091 | 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

PF00814   Glycoprotease family

Gene Ontology

Mouse over links to read term descriptions.
GO:0002949   GO:tRNA threonylcarbamoyladenosine modification  

GO:0004222   metalloendopeptidase activity  
GO:0006508   proteolysis  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
2 340 3zeu (B) 1 333 40.00 0 1 1.46077 -0.36
2 336 6fpe (B) 1 325 42.00 0.000000034 1 1.35514 0.28
4 340 3zeu (B) 3 333 49.00 0 1 1.50025 -0.1

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_126710)

Species Accession Gene Product
Arabidopsis thaliana AT4G22720   Actin-like ATPase superfamily protein
Arabidopsis thaliana AT2G45270   glycoprotease 1
Babesia bovis BBOV_II003000   glycoprotease family protein
Babesia bovis BBOV_III009430   glycoprotease family protein
Brugia malayi Bm1_18960   Probable O-sialoglycoprotein endopeptidase
Brugia malayi Bm1_52875   Glycoprotease family protein
Candida albicans CaO19.11636   likely glycoprotease similar to S. cerevisiae QRI7
Candida albicans CaO19.4160   likely glycoprotease similar to S. cerevisiae QRI7
Candida albicans CaO19.11267   similar to S. cerevisiae Kinase-Associated Endopeptidase 1
Candida albicans CaO19.3787   similar to S. cerevisiae Kinase-Associated Endopeptidase 1
Caenorhabditis elegans CELE_C01G10.10   Protein C01G10.10
Caenorhabditis elegans CELE_Y71H2AM.1   Protein Y71H2AM.1
Cryptosporidium hominis Chro.60410   endopeptidase
Cryptosporidium parvum cgd6_3550   endopeptidase, putative
Chlamydia trachomatis CT_197   metal dependent protease
Dictyostelium discoideum DDB_G0267512   hypothetical protein
Dictyostelium discoideum DDB_G0291299   hypothetical protein
Drosophila melanogaster Dmel_CG14231   CG14231 gene product from transcript CG14231-RB
Drosophila melanogaster Dmel_CG4933   CG4933 gene product from transcript CG4933-RA
Escherichia coli b3064   tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein
Echinococcus granulosus EgrG_000968400   tRNA threonylcarbamoyladenosine
Echinococcus granulosus EgrG_000105300   tRNA threonylcarbamoyladenosine
Entamoeba histolytica EHI_024630   glycoprotein endopeptidase, putative
Echinococcus multilocularis EmuJ_000105300   tRNA threonylcarbamoyladenosine
Echinococcus multilocularis EmuJ_000968400   tRNA threonylcarbamoyladenosine
Giardia lamblia GL50803_17420   O-sialoglycoprotein endopeptidase
Homo sapiens ENSG00000128694   O-sialoglycoprotein endopeptidase-like 1
Homo sapiens ENSG00000092094   O-sialoglycoprotein endopeptidase
Leishmania braziliensis LbrM.31.0100   O-sialoglycoprotein endopeptidase, putative,metallo-peptidase, Clan MK, Family M67
Leishmania donovani LdBPK_310110.1   O-sialoglycoprotein endopeptidase, putative
Leishmania infantum LinJ.31.0110   O-sialoglycoprotein endopeptidase, putative,metallo-peptidase, Clan MK, Family M67
Leishmania major LmjF.31.0100   O-sialoglycoprotein endopeptidase, putative,metallo-peptidase, Clan MK, Family M67
Leishmania mexicana LmxM.30.0100   O-sialoglycoprotein endopeptidase, putative,metallo-peptidase, Clan MK, Family M67
Loa Loa (eye worm) LOAG_10294   glycoprotease
Loa Loa (eye worm) LOAG_02821   osgep-prov protein
Mycobacterium leprae ML0379   Probable O-sialoglycoprotein endopeptidase Gcp (Glycoprotease)
Mus musculus 66246   O-sialoglycoprotein endopeptidase
Mus musculus ENSMUSG00000026096   O-sialoglycoprotein endopeptidase-like 1
Mycobacterium tuberculosis Rv3419c   Probable O-sialoglycoprotein endopeptidase Gcp (glycoprotease)
Mycobacterium ulcerans MUL_0884   putative DNA-binding/iron metalloprotein/AP endonuclease
Neospora caninum NCLIV_022600   glycoprotease family domain-containing protein, putative
Oryza sativa 9270395   Os12g0485000
Oryza sativa 4338033   Os05g0194600
Oryza sativa 4326718   Os01g0295900
Plasmodium berghei PBANKA_0514600   tRNA N6-adenosine threonylcarbamoyltransferase, putative
Plasmodium falciparum PF3D7_1030600   tRNA N6-adenosine threonylcarbamoyltransferase
Plasmodium knowlesi PKNH_0615300   tRNA N6-adenosine threonylcarbamoyltransferase, putative
Plasmodium vivax PVX_111195   tRNA N6-adenosine threonylcarbamoyltransferase, putative
Plasmodium yoelii PY00526   O-sialoglycoprotease-related
Saccharomyces cerevisiae YDL104C   Qri7p
Saccharomyces cerevisiae YKR038C   Kae1p
Schistosoma japonicum Sjp_0304730   ko:K01409 O-sialoglycoprotein endopeptidase [EC3.4.24.57], putative
Schistosoma japonicum Sjp_0109990   Probable O-sialoglycoprotein endopeptidase, putative
Schistosoma japonicum Sjp_0311990   ko:K01409 O-sialoglycoprotein endopeptidase [EC3.4.24.57], putative
Schistosoma mansoni Smp_125030   peptidase
Schistosoma mansoni Smp_012450   Kae1 peptidase (M22 family)
Schmidtea mediterranea mk4.000023.21   Probable tRNA N6-adenosine threonylcarbamoyltransferase, mitochondrial
Schmidtea mediterranea mk4.054239.01  
Trypanosoma brucei gambiense Tbg972.7.7480   O-sialoglycoprotein endopeptidase, putative,metallo-peptidase, Clan MK, Family M67
Trypanosoma brucei Tb927.7.6470   metallo-peptidase, Clan MK, Family M67
Trypanosoma congolense TcIL3000_7_5370   metallo-peptidase, Clan MK, Family M67, putative
Trypanosoma cruzi TcCLB.506515.20   O-sialoglycoprotein endopeptidase, putative
Trypanosoma cruzi TcCLB.508913.39   O-sialoglycoprotein endopeptidase, putative
Trypanosoma cruzi TcCLB.511321.4   O-sialoglycoprotein endopeptidase, putative
Toxoplasma gondii TGME49_202310   O-sialoglycoprotein endopeptidase
Treponema pallidum TP0680   DNA-binding/iron metalloprotein/AP endonuclease
Theileria parva TP04_0853   hypothetical protein
Theileria parva TP04_0852   glycoprotein endopeptidase, putative
Theileria parva TP04_0293   hypothetical protein, conserved
Trichomonas vaginalis TVAG_185400   Clan MK, familly M22, sialoglycoprotein endopeptidase-like metallopeptidase
Wolbachia endosymbiont of Brugia malayi Wbm0217   DNA-binding/iron metalloprotein/AP endonuclease

Essentiality

Rv3419c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3480 this record Mycobacterium tuberculosis non-essential nmpdr
Tb927.7.6470 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.6470 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.6470 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.6470 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
b3064 Escherichia coli essential goodall
YKR038C Saccharomyces cerevisiae inviable yeastgenome
TGME49_202310 Toxoplasma gondii Probably essential sidik
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
  • 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.
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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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Gene identifier Rv3419c (Mycobacterium tuberculosis), Probable O-sialoglycoprotein endopeptidase Gcp (glycoprotease)
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