Detailed view for TcCLB.511897.10

Basic information

TDR Targets ID: 54612
Trypanosoma cruzi, TFIIH basal transcription factor complex helicase subunit, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.2894 | Length (AA): 452 | MW (Da): 51269 | Paralog Number: 1

Signal peptide: N | GPI Anchor: N | 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

PF06777   Helical and beta-bridge domain
PF13307   Helicase C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016818   hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides  
GO:0006139   nucleobase, nucleoside, nucleotide and nucleic acid metabolic process  
GO:0005634   nucleus  
GO:0008026   ATP-dependent helicase activity  
GO:0005524   ATP binding  
GO:0004003   ATP-dependent DNA helicase activity  
GO:0003677   DNA binding  
GO:0003676   nucleic acid binding  
GO:0006289   nucleotide-excision repair  

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
103 363 3crv (A) 317 547 28.00 0.00000012 1 0.696534 0.6
266 350 5ifg (B) 23 116 31.00 0.57 0.16 0.426153 0.47

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_127585)

Species Accession Gene Product
Arabidopsis thaliana AT1G03190   DNA repair helicase UVH6
Babesia bovis BBOV_IV001300   DNA excision repair helicase
Brugia malayi Bm1_45675   probable DNA helicase ERCC2/XPD - southern platyfish, putative
Candida albicans CaO19_7119   hypothetical protein
Candida albicans CaO19.7119   DNA helicase component of transcription factor TFIIH, DNA excision repair complexes
Caenorhabditis elegans CELE_Y50D7A.2   Protein Y50D7A.2
Cryptosporidium hominis Chro.70101   DNA repair protein-related
Cryptosporidium parvum cgd7_820   RAD3DEXDc+HELICc protein
Dictyostelium discoideum DDB_G0267414   transcription factor IIH component
Drosophila melanogaster Dmel_CG9433   Xeroderma pigmentosum D ortholog (H. sapiens)
Echinococcus granulosus EgrG_000896400   DNA repair helicase rad3:xp d
Entamoeba histolytica EHI_132410   DNA repair helicase, putative
Entamoeba histolytica EHI_197850   DNA repair helicase, putative
Echinococcus multilocularis EmuJ_000896400   DNA repair helicase rad3:xp d
Giardia lamblia GL50803_4328   TFIIH basal transcription factor complex helicase subunit
Homo sapiens ENSG00000104884   excision repair cross-complementation group 2
Leishmania braziliensis LbrM.24.2360   TFIIH basal transcription factor complex helicase subunit, putative,RAD3/XPD protein, putative,DNA excision repair protein, puta
Leishmania donovani LdBPK_242370.1   TFIIH basal transcription factor complex helicase subunit, putative
Leishmania infantum LinJ.24.2370   TFIIH basal transcription factor complex helicase subunit, putative,RAD3/XPD protein, putative,DNA excision repair protein, puta
Leishmania major LmjF.24.2280   TFIIH basal transcription factor complex helicase subunit, putative,RAD3/XPD protein, putative,DNA excision repair protein, puta
Leishmania mexicana LmxM.24.2280   TFIIH basal transcription factor complex helicase subunit, putative,RAD3/XPD protein, putative,DNA excision repair protein, puta
Loa Loa (eye worm) LOAG_13428   TFIIH basal transcription factor complex helicase subunit
Loa Loa (eye worm) LOAG_13654   TFIIH basal transcription factor complex helicase subunit
Mus musculus ENSMUSG00000030400   excision repair cross-complementing rodent repair deficiency, complementation group 2
Neospora caninum NCLIV_059440   hypothetical protein
Oryza sativa 4337788   Os05g0144800
Plasmodium berghei PBANKA_0834900   TFIIH basal transcription factor complex helicase XPD subunit, putative
Plasmodium falciparum PF3D7_0934100   TFIIH basal transcription factor complex helicase XPD subunit
Plasmodium knowlesi PKNH_0732800   TFIIH basal transcription factor complex helicase XPD subunit, putative
Plasmodium vivax PVX_087010   TFIIH basal transcription factor complex helicase XPD subunit, putative
Plasmodium yoelii PY06097   hypothetical protein
Plasmodium yoelii PY00738   RAD3-like DNA helicase-related
Saccharomyces cerevisiae YER171W   TFIIH/NER complex ATP-dependent 5'-3' DNA helicase subunit RAD3
Schistosoma japonicum Sjp_0002530   ko:K01529 excision repair cross-complementing rodent repair deficiency, complementation group 2 [EC:3.6.1.-], putative
Schistosoma mansoni Smp_095370   DNA repair helicase rad3/xp-d
Schmidtea mediterranea mk4.010255.00   TFIIH basal transcription factor complex helicase XPD subunit
Schmidtea mediterranea mk4.009546.00  
Schmidtea mediterranea mk4.002491.02   TFIIH basal transcription factor complex helicase XPD subunit
Schmidtea mediterranea mk4.006459.01   TFIIH basal transcription factor complex helicase XPD subunit
Trypanosoma brucei gambiense Tbg972.8.5980   TFIIH basal transcription factor complex helicase subunit, putative
Trypanosoma brucei Tb927.8.5980   TFIIH basal transcription factor complex helicase subunit, putative
Trypanosoma congolense TcIL3000_8_5750   TFIIH basal transcription factor complex helicase subunit, putative
Trypanosoma cruzi TcCLB.511075.30   TFIIH basal transcription factor complex helicase subunit, putative
Trypanosoma cruzi TcCLB.511897.10   TFIIH basal transcription factor complex helicase subunit, putative
Toxoplasma gondii TGME49_216870   DNA excision repair helicase
Theileria parva TP01_0155   DNA repair protein rad3, putative
Trichomonas vaginalis TVAG_023300   DNA repair helicase rad3/xp-D, putative
Trichomonas vaginalis TVAG_442190   DNA repair helicase rad3/xp-D, putative

Essentiality

TcCLB.511897.10 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.5980 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.5980 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.5980 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.5980 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y50D7A.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y50D7A.2 Caenorhabditis elegans larval arrest wormbase
CELE_Y50D7A.2 Caenorhabditis elegans slow growth wormbase
YER171W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0834900 Plasmodium berghei Essential plasmo
TGME49_216870 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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

212 literature references were collected for this gene.

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

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Gene identifier TcCLB.511897.10 (Trypanosoma cruzi), TFIIH basal transcription factor complex helicase subunit, putative
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