Detailed view for Rv2287

Basic information

TDR Targets ID: 10051
Mycobacterium tuberculosis, Probable conserved integral membrane transport protein YjcE
Source Database / ID:  Tuberculist 

pI: 7.5505 | Length (AA): 542 | MW (Da): 57491 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 12

Druggability Group : DG2

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

PF00999   Sodium/hydrogen exchanger family

Gene Ontology

Mouse over links to read term descriptions.
GO:0016021   integral to membrane  
GO:0015299   solute:hydrogen antiporter activity  
GO:0055085   transmembrane transport  
GO:0006812   cation transport  

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
16 417 5bz3 (A) 8 377 29.00 0.0044 0.79 0.804497 0.89
167 262 2wgm (A) 3 85 36.00 0.49 0.05 0.143922 2.11

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
  • 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_126729)

Species Accession Gene Product
Arabidopsis thaliana AT3G06370   sodium hydrogen exchanger 4
Arabidopsis thaliana AT1G79610   sodium/hydrogen exchanger 6
Arabidopsis thaliana AT5G27150   sodium/hydrogen exchanger 1
Arabidopsis thaliana AT5G55470   sodium/hydrogen exchanger 4
Arabidopsis thaliana AT1G54370   sodium hydrogen exchanger 5
Arabidopsis thaliana AT3G05030   K+/H+ exchanger
Brugia malayi Bm1_34910   sodium/hydrogen exchanger 3 family protein
Brugia malayi Bm1_49725   Sodium/hydrogen exchanger 8
Candida albicans CaO19.11677   Na+/H+ exchanger
Candida albicans CaO19.4201   Na+/H+ exchanger
Caenorhabditis elegans CELE_K09C8.1   Protein PBO-4
Caenorhabditis elegans CELE_Y18D10A.6   Protein NHX-8, isoform A
Caenorhabditis elegans CELE_F57C7.2   Protein NHX-5, isoform B
Cryptosporidium hominis Chro.60024   Na+/H+ antiporter
Cryptosporidium hominis Chro.60025   Na+/H+ antiporter
Cryptosporidium parvum cgd6_130   possible Na+/H+ and K+/H+ antiporter with 12 transmembrane domains, duplicated adjacent gene
Cryptosporidium parvum cgd6_140   possible Na+/H+ and K+/H+ antiporter with 12 transmembrane domains, duplicated adjacent gene
Dictyostelium discoideum DDB_G0281877   hypothetical protein
Dictyostelium discoideum DDB_G0275711   Na-H exchanger
Drosophila melanogaster Dmel_CG11328   Na[+]/H[+] hydrogen exchanger 3
Drosophila melanogaster Dmel_CG12178   Na[+]/H[+] hydrogen exchanger 1
Echinococcus granulosus EgrG_000126700   sodium:hydrogen exchanger 7
Entamoeba histolytica EHI_176180   sodium/proton antiporter, putative
Entamoeba histolytica EHI_197530   sodium/proton antiporter, putative
Echinococcus multilocularis EmuJ_000126700   sodium:hydrogen exchanger 7
Homo sapiens ENSG00000065923   solute carrier family 9, subfamily A (NHE7, cation proton antiporter 7), member 7
Homo sapiens ENSG00000197818   solute carrier family 9, subfamily A (NHE8, cation proton antiporter 8), member 8
Homo sapiens ENSG00000181804   solute carrier family 9, subfamily A (NHE9, cation proton antiporter 9), member 9
Homo sapiens ENSG00000198689   solute carrier family 9, subfamily A (NHE6, cation proton antiporter 6), member 6
Leishmania braziliensis LbrM.23.0920   Na/H antiporter-like protein
Leishmania donovani LdBPK_231000.1   Na/H antiporter-like protein
Leishmania infantum LinJ.23.1000   Na/H antiporter-like protein
Leishmania major LmjF.23.0830   Na/H antiporter-like protein
Leishmania mexicana LmxM.23.0830   Na/H antiporter-like protein
Loa Loa (eye worm) LOAG_00991   hypothetical protein
Loa Loa (eye worm) LOAG_09524   sodium-hydrogen exchanger NHE1
Mus musculus ENSMUSG00000039463   solute carrier family 9 (sodium/hydrogen exchanger), member 8
Mus musculus ENSMUSG00000060681   solute carrier family 9 (sodium/hydrogen exchanger), member 6
Mus musculus ENSMUSG00000037341   solute carrier family 9 (sodium/hydrogen exchanger), member 7
Mus musculus ENSMUSG00000031129   solute carrier family 9 (sodium/hydrogen exchanger), member 9
Mycobacterium tuberculosis Rv2287   Probable conserved integral membrane transport protein YjcE
Neospora caninum NCLIV_024460   Na /H exchanger, putative
Neospora caninum NCLIV_001080   hypothetical protein
Neospora caninum NCLIV_009440   hypothetical protein
Oryza sativa 4346626   Os09g0286400
Oryza sativa 9270505   Os06g0318500
Oryza sativa 4344217   Os07g0666900
Oryza sativa 4351027   Os11g0648000
Oryza sativa 4337811   Os05g0148600
Oryza sativa 9270263   Os09g0482620
Plasmodium berghei PBANKA_1402000   sodium/hydrogen exchanger, Na+, H+ antiporter, putative
Plasmodium falciparum PF3D7_1303500   sodium/hydrogen exchanger, Na+, H+ antiporter
Plasmodium knowlesi PKNH_1403700   sodium/hydrogen exchanger, putative
Plasmodium vivax PVX_122015   sodium/hydrogen exchanger 1, putative
Plasmodium yoelii PY02931   Sodium/hydrogen exchanger family protein, putative
Saccharomyces cerevisiae YDR456W   bifunctional K:H/Na:H antiporter NHX1
Schistosoma japonicum Sjp_0117710   Sodium/hydrogen exchanger 6, putative
Schistosoma japonicum Sjp_0200720   Sodium/hydrogen exchanger 9, putative
Schistosoma mansoni Smp_167210   Slc9a7 protein
Schmidtea mediterranea mk4.027071.01   Sodium/hydrogen exchanger 8
Schmidtea mediterranea mk4.000231.00   Sodium/hydrogen exchanger
Schmidtea mediterranea mk4.021333.00  
Schmidtea mediterranea mk4.023701.00   Sodium/hydrogen exchanger 8
Trypanosoma cruzi TcCLB.510511.9   Na/H antiporter-like protein, putative
Trypanosoma cruzi TcCLB.509459.60   Na/H antiporter-like protein, putative
Toxoplasma gondii TGME49_305180   Na+/H+ exchanger NHE3
Toxoplasma gondii TGME49_263480   sodium/hydrogen exchanger 3 protein
Toxoplasma gondii TGME49_299060   sodium/hydrogen exchanger NHE2

Essentiality

Rv2287 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2322 this record Mycobacterium tuberculosis non-essential nmpdr
TGME49_299060 Toxoplasma gondii Essentiality uncertain sidik
TGME49_263480 Toxoplasma gondii Essentiality uncertain sidik
TGME49_305180 Toxoplasma gondii Essentiality uncertain sidik
TGME49_299060 Toxoplasma gondii Probably essential sidik
TGME49_263480 Toxoplasma gondii Probably essential sidik
TGME49_305180 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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): 0.1

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 Rv2287 (Mycobacterium tuberculosis), Probable conserved integral membrane transport protein YjcE
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