Detailed view for Rv1233c

Basic information

TDR Targets ID: 7827
Mycobacterium tuberculosis, Conserved hypothetical membrane protein
Source Database / ID:  Tuberculist 

pI: 4.0638 | Length (AA): 198 | MW (Da): 19899 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 2

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

PF13828   Domain of unknown function (DUF4190)

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

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
5 127 3pzd (A) 1517 1641 13.00 0 0.04 0.786812 -0.96
71 115 1nay (A) 107 139 67.00 0.0098 0.03 0.446273 0.13
81 129 4dmu (A) 5 217 41.00 0.1 0.35 0.715475 -0.54

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 0-20% percentile Dormant phase, Dormant phase. hasan murphy
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_127406)

Species Accession Gene Product
Arabidopsis thaliana AT5G58160   formin-like protein 13
Arabidopsis thaliana AT2G25050   actin-binding FH2 protein
Arabidopsis thaliana AT3G32400   Actin-binding FH2/DRF autoregulatory protein
Brugia malayi Bm1_05395   Formin Homology 2 Domain containing protein
Brugia malayi Bm1_09450   Formin Homology 2 Domain containing protein
Candida albicans CaO19.12393   involved in cytoskeletal control
Candida albicans CaO19.4927   involved in cytoskeletal control
Candida albicans CaO19.7537   cytoskeletal regulatory protein binding
Caenorhabditis elegans CELE_F11H8.4   Protein CYK-1, isoform A
Dictyostelium discoideum DDB_G0279607   actin binding protein
Dictyostelium discoideum DDB_G0289763   actin binding protein
Dictyostelium discoideum DDB_G0282297   actin binding protein
Drosophila melanogaster Dmel_CG1768   diaphanous
Echinococcus granulosus EgrG_000858900   diaphanous
Entamoeba histolytica EHI_118260   formin homology 2 family protein
Entamoeba histolytica EHI_125300   diaphanous protein, putative
Entamoeba histolytica EHI_190990   diaphanous protein, putative
Entamoeba histolytica EHI_192460   formin homology 2 family protein
Echinococcus multilocularis EmuJ_000858900   diaphanous
Homo sapiens ENSG00000139734   diaphanous-related formin 3
Homo sapiens ENSG00000131504   diaphanous-related formin 1
Homo sapiens ENSG00000147202   diaphanous-related formin 2
Loa Loa (eye worm) LOAG_13493   hypothetical protein
Loa Loa (eye worm) LOAG_06905   hypothetical protein
Mus musculus ENSMUSG00000024456   diaphanous homolog 1 (Drosophila)
Mus musculus ENSMUSG00000034480   diaphanous homolog 2 (Drosophila)
Mus musculus ENSMUSG00000022021   diaphanous homolog 3 (Drosophila)
Mycobacterium tuberculosis Rv1233c   Conserved hypothetical membrane protein
Oryza sativa 9269435   Os08g0280200
Oryza sativa 4343793   Os07g0596300
Saccharomyces cerevisiae YNL271C   Bni1p
Schistosoma japonicum Sjp_0022610   ko:K05740 diaphanous 1, putative
Schistosoma mansoni Smp_068720   diaphanous
Schmidtea mediterranea mk4.000037.09   Protein diaphanous
Schmidtea mediterranea mk4.025887.00  
Schmidtea mediterranea mk4.007976.01  
Schmidtea mediterranea mk4.002029.07  
Schmidtea mediterranea mk4.001070.16   Protein diaphanous
Schmidtea mediterranea mk4.000037.10   Protein diaphanous
Schmidtea mediterranea mk4.000017.25  
Trichomonas vaginalis TVAG_348260   formin 1,2/cappuccino, putative
Trichomonas vaginalis TVAG_029100   formin domain-containing protein, putative

Essentiality

Rv1233c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1254 this record Mycobacterium tuberculosis non-essential nmpdr
CELE_F11H8.4 Caenorhabditis elegans adult lethal wormbase
CELE_F11H8.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_F11H8.4 Caenorhabditis elegans larval arrest wormbase
CELE_F11H8.4 Caenorhabditis elegans larval lethal wormbase
CELE_F11H8.4 Caenorhabditis elegans sterile wormbase
YNL271C Saccharomyces cerevisiae inviable yeastgenome
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.
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier Rv1233c (Mycobacterium tuberculosis), Conserved hypothetical membrane protein
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