Detailed view for TcCLB.508973.50

Basic information

TDR Targets ID: 54424
Trypanosoma cruzi, ATP-dependent RNA helicase DBP2B, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.9807 | Length (AA): 622 | MW (Da): 68359 | Paralog Number: 2

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

PF00270   DEAD/DEAH box helicase
PF00271   Helicase conserved C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0008026   ATP-dependent helicase activity  
GO:0005524   ATP binding  
GO:0004386   helicase activity  
GO:0003676   nucleic acid binding  

Metabolic Pathways

Spliceosome (KEGG)

Structural information

Modbase 3D models:

There are 12 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
6 622 2eyq (A) 512 1096 16.00 0 1 0.94 0.29
58 448 2db3 (A) 233 621 42.00 0 1 1.31 -1.88
71 278 1q0u (A) 5 210 34.00 0 1 0.89 -2.31
34 281 4a4d (A) 55 304 53.00 0 1 1.13611 -1.49
34 457 4ljy (A) 215 670 35.00 0 1 1.14687 -0.85
35 450 5e7i (A) 136 574 46.00 0 1 1.29101 -1.12
39 449 4nho (A) 360 797 37.00 0 1 1.05717 -0.72
51 447 2db3 (A) 226 620 39.00 0 1 1.19266 -1.05
72 279 2oxc (A) 64 266 31.00 0 1 0.831805 -1.48
290 444 5nt7 (B) 465 617 48.00 0 1 0.940396 -2.11
452 491 3bog (C) 3 79 78.00 0.0000000052 0.04 0.663509 0.95
541 606 5cva (A) 3 65 21.00 0 0.08 0.314509 -0.64

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
Upper 80-100% percentile metacyclic. Smircich P
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile epimastigote. Smircich P
Show/Hide expression data references
  • Smircich P Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi.

Orthologs

Ortholog group members (OG5_126772)

Species Accession Gene Product
Arabidopsis thaliana AT1G55150   DEAD-box ATP-dependent RNA helicase 20
Arabidopsis thaliana AT5G63120   DEAD-box ATP-dependent RNA helicase 30
Babesia bovis BBOV_III000190   p68 RNA helicase protein, putative
Babesia bovis BBOV_II004470   p68-like protein
Brugia malayi Bm1_52675   ATP-dependent RNA helicase P62
Brugia malayi Bm1_11075   RNA-dependent helicase
Candida albicans CaO19.171   similar to N terminus of S. cerevisiae DBP2 (YNL112W) cytoplasmic RNA helicase involved in nonsense-mediated mRNA catabolism
Candida albicans CaO19.170   similar to C terminus of S. cerevisiae DBP2 (YNL112W) cytoplasmic RNA helicase involved in nonsense-mediated mRNA catabolism
Candida albicans CaO19.7803   similar to C terminus of S. cerevisiae DBP2 (YNL112W) cytoplasmic RNA helicase involved in nonsense-mediated mRNA catabolism
Candida albicans CaO19.7804   similar to N terminus of S. cerevisiae DBP2 (YNL112W) cytoplasmic RNA helicase involved in nonsense-mediated mRNA catabolism
Caenorhabditis elegans CELE_F58E10.3   Protein F58E10.3, isoform A
Cryptosporidium hominis Chro.20112   similar to RNA-dependent helicase p68 (DEAD-box protein p68) (DEAD-box protein 5)
Cryptosporidium parvum cgd2_1010   conserved hypothetical protein
Dictyostelium discoideum DDB_G0281925   DEAD/DEAH box helicase
Dictyostelium discoideum DDB_G0293168   DEAD/DEAH box helicase
Drosophila melanogaster Dmel_CG10777   CG10777 gene product from transcript CG10777-RB
Drosophila melanogaster Dmel_CG10077   CG10077 gene product from transcript CG10077-RA
Drosophila melanogaster Dmel_CG10279   CG10279 gene product from transcript CG10279-RK
Echinococcus granulosus EgrG_000900600   ATP dependent RNA helicase DDX5
Echinococcus granulosus EgrG_000194600   DEAD box ATP dependent RNA helicase
Entamoeba histolytica EHI_096390   DEAD/DEAH box helicase, putative
Echinococcus multilocularis EmuJ_000194600   DEAD box ATP dependent RNA helicase
Echinococcus multilocularis EmuJ_000900600   ATP dependent RNA helicase DDX5
Homo sapiens ENSG00000100201   DEAD (Asp-Glu-Ala-Asp) box helicase 17
Homo sapiens ENSG00000108654   DEAD (Asp-Glu-Ala-Asp) box helicase 5
Leishmania braziliensis LbrM.35.2370   DEAD box RNA helicase, putative
Leishmania braziliensis LbrM.07.0360   ATP-dependent DEAD/H RNA helicase, putative
Leishmania donovani LdBPK_070130.1   ATP-dependent RNA helicase DBP2B, putative
Leishmania donovani LdBPK_362260.1   ATP-dependent RNA helicase DBP2A, putative
Leishmania infantum LinJ.07.0130   ATP-dependent DEAD/H RNA helicase, putative
Leishmania infantum LinJ.36.2260   DEAD box RNA helicase, putative
Leishmania major LmjF.07.0340   ATP-dependent DEAD/H RNA helicase, putative
Leishmania major LmjF.36.2130   DEAD box RNA helicase, putative
Leishmania mexicana LmxM.36.2130   DEAD box RNA helicase, putative
Leishmania mexicana LmxM.07.0340   ATP-dependent DEAD/H RNA helicase, putative
Loa Loa (eye worm) LOAG_00051   ATP-dependent RNA helicase P62
Loa Loa (eye worm) LOAG_13328   DEAD box polypeptide 17
Loa Loa (eye worm) LOAG_08166   RNA-dependent helicase
Mycobacterium leprae ML0811c   Probable ATP-dependent RNA helicase Rhle
Mus musculus ENSMUSG00000020719   DEAD (Asp-Glu-Ala-Asp) box polypeptide 5
Mus musculus ENSMUSG00000055065   DEAD (Asp-Glu-Ala-Asp) box polypeptide 17
Neospora caninum NCLIV_056560   DEAD/DEAH box helicase, putative
Neospora caninum NCLIV_050680   hypothetical protein
Oryza sativa 9271802   Os01g0911100
Oryza sativa 9268869   Os01g0197200
Onchocerca volvulus OVOC6668  
Plasmodium berghei PBANKA_1309700   ATP-dependent RNA helicase DDX5, putative
Plasmodium berghei PBANKA_1441900   ATP-dependent RNA helicase, putative
Plasmodium falciparum PF3D7_1227100   DNA helicase 60
Plasmodium falciparum PF3D7_1445900   ATP-dependent RNA helicase DDX5, putative
Plasmodium knowlesi PKNH_1446500   ATP-dependent RNA helicase, putative
Plasmodium knowlesi PKNH_1236300   ATP-dependent RNA helicase DDX5, putative
Plasmodium vivax PVX_118190   ATP-dependent RNA helicase DDX5, putative
Plasmodium vivax PVX_123985   ATP-dependent RNA helicase, putative
Plasmodium yoelii PY01902   DEAD/DEAH box helicase, putative
Plasmodium yoelii PY04046   DEAD/DEAH box helicase, putative
Saccharomyces cerevisiae YNL112W   DEAD-box ATP-dependent RNA helicase DBP2
Schistosoma japonicum Sjp_0092770   Probable ATP-dependent RNA helicase DDX17, putative
Schistosoma japonicum Sjp_0061330   Probable ATP-dependent RNA helicase DDX5, putative
Schistosoma japonicum Sjp_0092760   ATP-dependent RNA helicase DBP2, putative
Schistosoma mansoni Smp_133120.1   DEAD box ATP-dependent RNA helicase
Schistosoma mansoni Smp_133120.2   DEAD box ATP-dependent RNA helicase
Schistosoma mansoni Smp_013790   DEAD box ATP-dependent RNA helicase
Schmidtea mediterranea mk4.000981.00   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.072733.01  
Schmidtea mediterranea mk4.019103.00   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.003783.00   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.001284.03   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.002944.02  
Schmidtea mediterranea mk4.008110.03   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.004339.02   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.016007.00   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.000484.12   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.004104.03   DEAD box ATP-dependent RNA helicase, putative
Schmidtea mediterranea mk4.001284.02   DEAD box ATP-dependent RNA helicase, putative
Trypanosoma brucei gambiense Tbg972.10.8110   ATP-dependent DEAD/H RNA helicase HEL64, putative
Trypanosoma brucei gambiense Tbg972.8.1070   ATP-dependent DEAD/H RNA helicase, putative
Trypanosoma brucei Tb927.8.1510   ATP-dependent RNA helicase DBP2B, putative
Trypanosoma brucei Tb927.10.6630   ATP-dependent RNA helicase DBP2A, putative
Trypanosoma congolense TcIL3000_10_5710   ATP-dependent RNA helicase DBP2A, putative
Trypanosoma congolense TcIL3000_8_1270   ATP-dependent RNA helicase DBP2B, putative
Trypanosoma cruzi TcCLB.508547.110   ATP-dependent RNA helicase DBP2B, putative
Trypanosoma cruzi TcCLB.508973.50   ATP-dependent RNA helicase DBP2B, putative
Trypanosoma cruzi TcCLB.510187.290   ATP-dependent RNA helicase DBP2A, putative
Toxoplasma gondii TGME49_313240   ethylene-responsive RNA helicase, putative
Toxoplasma gondii TGME49_236650   DEAD (Asp-Glu-Ala-Asp) box polypeptide 17
Theileria parva TP04_0562   RNA helicase, putative
Theileria parva TP03_0830   ATP-dependent RNA helicase, putative
Trichomonas vaginalis TVAG_126160   DEAD box ATP-dependent RNA helicase, putative
Trichomonas vaginalis TVAG_173590   DEAD box ATP-dependent RNA helicase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0708   superfamily II DNA/RNA helicase

Essentiality

TcCLB.508973.50 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.6630 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.6630 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.6630 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.6630 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.8.1510 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.1510 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.1510 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.1510 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F58E10.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_F58E10.3 Caenorhabditis elegans larval arrest wormbase
CELE_F58E10.3 Caenorhabditis elegans slow growth wormbase
YNL112W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1309700 Plasmodium berghei Slow plasmo
PBANKA_1441900 Plasmodium berghei Essential plasmo
TGME49_313240 Toxoplasma gondii Probably essential sidik
TGME49_236650 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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 TcCLB.508973.50 (Trypanosoma cruzi), ATP-dependent RNA helicase DBP2B, putative
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