Detailed view for PBANKA_1034100

Basic information

TDR Targets ID: 825698
Plasmodium berghei, FANCJ-like helicase, putative
Source Database / ID: 

pI: 8.9882 | Length (AA): 1069 | MW (Da): 124963 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG

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

PF06733   DEAD_2
PF13307   Helicase C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0006139   nucleobase, nucleoside, nucleotide and nucleic acid metabolic process  
GO:0016818   hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides  
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  

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
213 1061 3gb8 (A) 131 1018 12.00 0 1 0.769 0.58
296 425 4d5t (A) 18 141 27.00 0.89 0.84 0.548609 -1.19
303 443 4zkt (B) 954 1122 33.00 0.25 0.01 0.112899 2.24

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

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile Female gametocyte. Yeoh LM
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Gametocyte, 22 hs Schizont, Erthyrocytic stages. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile 4 hs Ring, 16 hs Trophozoite. Otto TD
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Ookinete, Male gametocyte. Otto TD Yeoh LM
Show/Hide expression data references
  • Otto TD A comprehensive evaluation of rodent malaria parasite genomes and gene expression.
  • Yeoh LM Comparative transcriptomics of female and male gametocytes in Plasmodium berghei and the evolution of sex in alveolates.

Orthologs

Ortholog group members (OG5_127294)

Species Accession Gene Product
Arabidopsis thaliana AT1G20720   RAD3-like DNA-binding helicase protein
Arabidopsis thaliana AT1G20750   RAD3-like DNA-binding helicase protein
Arabidopsis thaliana AT1G79950   RAD3-like DNA-binding helicase protein
Babesia bovis BBOV_III006210   hypothetical protein
Babesia bovis BBOV_III008820   DNA repair helicase (rad3) family protein
Brugia malayi Bm1_16815   BRCA1-binding helicase-like protein BACH1
Brugia malayi Bm1_30515   DEAD_2 family protein
Caenorhabditis elegans CELE_F25H2.13   Protein RTEL-1
Caenorhabditis elegans CELE_F33H2.1   Protein DOG-1
Cryptosporidium hominis Chro.60307   helicase, belonging to UvrD family
Cryptosporidium parvum cgd6_2660   DNA repair helicase
Dictyostelium discoideum DDB_G0286621   DEAD/DEAH box helicase
Drosophila melanogaster Dmel_CG4078   CG4078 gene product from transcript CG4078-RB
Echinococcus granulosus EgrG_000640000   regulator of telomere length splice variant
Echinococcus granulosus EgrG_000961200   Fanconi anemia group J protein
Echinococcus granulosus EgrG_000961300   Fanconi anemia group J protein
Entamoeba histolytica EHI_054240   DNA repair helicase, putative
Echinococcus multilocularis EmuJ_000640000   regulator of telomere length splice variant regulator of telomere elongation helicase
Echinococcus multilocularis EmuJ_000961200   Fanconi anemia group J protein
Giardia lamblia GL50803_5631   TFIIH basal transcription factor complex helicase subunit
Homo sapiens 83990   BRCA1 interacting protein C-terminal helicase 1
Homo sapiens ENSG00000258366   regulator of telomere elongation helicase 1
Leishmania braziliensis LbrM.29.2630   helicase, putative
Leishmania donovani LdBPK_292770.1   helicase, putative
Leishmania infantum LinJ.29.2770   helicase, putative
Leishmania major LmjF.29.2660   helicase, putative
Leishmania mexicana LmxM.08_29.2660   helicase, putative
Loa Loa (eye worm) LOAG_05322   hypothetical protein
Loa Loa (eye worm) LOAG_10252   hypothetical protein
Loa Loa (eye worm) LOAG_11323   hypothetical protein
Mus musculus ENSMUSG00000034329   BRCA1 interacting protein C-terminal helicase 1
Mus musculus ENSMUSG00000038685   regulator of telomere elongation helicase 1
Neospora caninum NCLIV_004030   hypothetical protein
Oryza sativa 4326378   Os01g0592900
Oryza sativa 4347791   Os09g0551800
Plasmodium berghei PBANKA_1034100   FANCJ-like helicase, putative
Plasmodium falciparum PF3D7_1408400   FANCJ-like helicase, putative
Plasmodium knowlesi PKNH_1350000   FANCJ-like helicase, putative
Plasmodium vivax PVX_086025   DNA repair helicase, putative
Plasmodium yoelii PY06657   DNA repair helicase, putative
Schistosoma japonicum Sjp_0309300   Regulator of telomere elongation helicase 1, putative
Schistosoma japonicum Sjp_0310020   Regulator of telomere elongation helicase 1, putative
Schistosoma japonicum Sjp_0309350   ko:K01509 adenosinetriphosphatase [EC3.6.1.3], putative
Schistosoma japonicum Sjp_0045750   Fanconi anemia group J protein homolog, putative
Schistosoma mansoni Smp_136280   regulator of telomere elongation helicase 1 rtel1
Schistosoma mansoni Smp_173440   brca1 interacting protein C-terminal helicase 1 brip1
Schmidtea mediterranea mk4.000667.07  
Schmidtea mediterranea mk4.003032.00   Fanconi anemia group J protein
Schmidtea mediterranea mk4.000667.08   RTEL1
Schmidtea mediterranea mk4.014273.00  
Schmidtea mediterranea mk4.000667.06   Regulator of telomere elongation helicase 1 homolog
Schmidtea mediterranea mk4.000996.00   Fanconi anemia group J protein
Schmidtea mediterranea mk4.015556.01   Fanconi anemia group J protein
Schmidtea mediterranea mk4.015556.00   Fanconi anemia group J protein
Schmidtea mediterranea mk4.003032.01   Fanconi anemia group J protein
Schmidtea mediterranea mk4.003032.02   Fanconi anemia group J protein
Trypanosoma brucei gambiense Tbg972.3.3240   helicase, putative
Trypanosoma brucei Tb927.3.3090   helicase, putative
Trypanosoma congolense TcIL3000_3_2000   helicase, putative
Trypanosoma cruzi TcCLB.508153.500   helicase, putative
Trypanosoma cruzi TcCLB.506697.40   helicase, putative
Toxoplasma gondii TGME49_209770   helicase, putative
Theileria parva TP04_0785   DNA repair helicase, putative
Trichomonas vaginalis TVAG_067090   brca1 interacting protein C-terminal helicase 1 brip1, putative
Trichomonas vaginalis TVAG_013790   regulator of telomere elongation helicase 1 rtel1, putative
Trichomonas vaginalis TVAG_288470   regulator of telomere elongation helicase 1 rtel1, putative
Trichomonas vaginalis TVAG_390170   DNA repair helicase rad3/xp-D, putative
Trichomonas vaginalis TVAG_445200   regulator of telomere elongation helicase 1 rtel1, putative

Essentiality

PBANKA_1034100 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.3090 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.3090 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.3090 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.3090 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1034100 this record Plasmodium berghei Slow plasmo
TGME49_209770 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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

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.

User comments

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Gene identifier PBANKA_1034100 (Plasmodium berghei), FANCJ-like helicase, putative
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