Detailed view for Rv3455c

Basic information

TDR Targets ID: 981895
Mycobacterium tuberculosis, Probable tRNA pseudouridine synthase a TruA (pseudouridylate synthase I) (pseudouridine synthase I) (uracil hydrolyase)
Source Database / ID:  Tuberculist 

pI: 9.1383 | Length (AA): 256 | MW (Da): 28060 | 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

PF01416  

Gene Ontology

Mouse over links to read term descriptions.
GO:0009982   pseudouridine synthase activity  
GO:0003723   RNA binding  
GO:0009451   RNA modification  
GO:0001522   pseudouridine synthesis  

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
2 240 1vs3 (A) 24 249 36.00 0 1 1.20649 0.48
3 245 1dj0 (A) 32 260 34.00 0 1 1.28982 0.24

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_126786)

Species Accession Gene Product
Arabidopsis thaliana AT1G34150   pseudouridine synthase-like protein
Arabidopsis thaliana AT3G06950   pseudouridine synthase family protein
Babesia bovis BBOV_III005490   tRNA pseudouridine synthase A family protein
Brugia malayi Bm1_31245   hypothetical protein
Brugia malayi Bm1_24735   tRNA pseudouridine synthase family protein
Candida albicans CaO19.13676   likely tRNA pseudouridine synthase similar to S. cerevisiae DEG1 (YFL001W) cytoplasmic enzyme
Candida albicans CaO19.6297   likely tRNA pseudouridine synthase similar to S. cerevisiae DEG1 (YFL001W) cytoplasmic enzyme
Caenorhabditis elegans CELE_E02H1.3   Protein TAG-124
Cryptosporidium hominis Chro.80602   hypothetical protein
Cryptosporidium parvum cgd8_5280   Deg1p-like type II pseudouridylate synthase TruA
Chlamydia trachomatis CT_463   tRNA pseudouridine synthase A
Dictyostelium discoideum DDB_G0288909   tRNA pseudouridylate synthase
Dictyostelium discoideum DDB_G0283061   hypothetical protein
Drosophila melanogaster Dmel_CG3045   CG3045 gene product from transcript CG3045-RA
Drosophila melanogaster Dmel_CG34140   CG34140 gene product from transcript CG34140-RA
Escherichia coli b2318   tRNA pseudouridine(38-40) synthase
Echinococcus granulosus EgrG_000218100   hypothetical protein
Echinococcus granulosus EgrG_001186100   trna pseudouridine synthase 3
Entamoeba histolytica EHI_151650   pseudouridine synthase, putative
Echinococcus multilocularis EmuJ_000218100   conserved hypothetical protein
Echinococcus multilocularis EmuJ_001186100   trna pseudouridine synthase 3
Giardia lamblia GL50803_89746   Pseudouridylate synthase, putative
Homo sapiens ENSG00000110060   pseudouridylate synthase 3
Homo sapiens ENSG00000169972   pseudouridylate synthase-like 1
Leishmania braziliensis LbrM.30.1610   pseudouridine synthase A-like protein, putative
Leishmania donovani LdBPK_301570.1   pseudouridine synthase A-like protein, putative
Leishmania infantum LinJ.30.1570   pseudouridine synthase A-like protein, putative
Leishmania major LmjF.30.1550   pseudouridine synthase A-like protein, putative
Leishmania mexicana LmxM.29.1550   pseudouridine synthase A-like protein, putative
Loa Loa (eye worm) LOAG_12156   hypothetical protein
Loa Loa (eye worm) LOAG_00766   hypothetical protein
Mycobacterium leprae ML1955c   PROBABLE TRNA PSEUDOURIDINE SYNTHASE A TRUA (PSEUDOURIDYLATE SYNTHASE I) (PSEUDOURIDINE SYNTHASE I) (URACIL HYDROLYASE)
Mus musculus ENSMUSG00000032103   pseudouridine synthase 3
Mus musculus ENSMUSG00000051557   pseudouridylate synthase-like 1
Mycobacterium tuberculosis Rv3455c   Probable tRNA pseudouridine synthase a TruA (pseudouridylate synthase I) (pseudouridine synthase I) (uracil hydrolyase)
Mycobacterium ulcerans MUL_0850   tRNA pseudouridine synthase A
Neospora caninum NCLIV_012350   hypothetical protein
Oryza sativa 9267107   Os05g0279300
Oryza sativa 4332977   Os03g0381100
Plasmodium berghei PBANKA_0809900   tRNA pseudouridine synthase, putative
Plasmodium falciparum PF3D7_0908700   tRNA pseudouridine synthase, putative
Plasmodium knowlesi PKNH_0706700   tRNA pseudouridine synthase, putative
Plasmodium vivax PVX_098875   tRNA pseudouridine synthase, putative
Saccharomyces cerevisiae YFL001W   pseudouridine synthase DEG1
Schistosoma japonicum Sjp_0087460   Conserved hypothetical protein
Schistosoma japonicum Sjp_0302370   Conserved hypothetical protein
Schistosoma japonicum Sjp_0108960   ko:K01855 PUS3, LOC479397; pseudouridylate synthase 3 [EC:5.4.99.-], putative
Schistosoma mansoni Smp_171830   pseudouridylate synthase
Schmidtea mediterranea mk4.003609.02   Putative pseudouridylate synthase
Schmidtea mediterranea mk4.003609.04  
Schmidtea mediterranea mk4.003609.03  
Schmidtea mediterranea mk4.005614.01   Putative pseudouridylate synthase
Schmidtea mediterranea mk4.005614.00   Probable tRNA pseudouridine synthase tag-124
Trypanosoma brucei gambiense Tbg972.6.2760   pseudouridine synthase A-like protein, putative
Trypanosoma brucei Tb927.6.2970   pseudouridine synthase A-like protein, putative
Trypanosoma congolense TcIL3000_6_2460   pseudouridine synthase A-like protein, putative
Trypanosoma cruzi TcCLB.511751.180   pseudouridine synthase A-like protein, putative
Trypanosoma cruzi TcCLB.507023.30   pseudouridine synthase A-like protein, putative
Toxoplasma gondii TGME49_220212   pseudouridine synthase
Treponema pallidum TP0830   tRNA pseudouridine synthase A
Trichomonas vaginalis TVAG_206800   pseudouridylate synthase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0428   tRNA pseudouridine synthase A

Essentiality

Rv3455c has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b2318 Escherichia coli non-essential goodall
TGME49_220212 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
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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.

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User comments

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Gene identifier Rv3455c (Mycobacterium tuberculosis), Probable tRNA pseudouridine synthase a TruA (pseudouridylate synthase I) (pseudouridine synthase I) (uracil hydrolyase)
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