Detailed view for LmjF.34.3500

Basic information

TDR Targets ID: 26191
Leishmania major, ruvb-like 1 DNA helicase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.9767 | Length (AA): 459 | MW (Da): 50323 | Paralog Number: 0

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

Druggability Group : DG2

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

PF06068   TIP49 C-terminus

Gene Ontology

Mouse over links to read term descriptions.
GO:0097255   GO:R2TP complex  

GO:0043141   ATP-dependent 5'-3' DNA helicase activity  
GO:0035267   NuA4 histone acetyltransferase complex  
GO:0031011   INO80 complex  
GO:0005634   nucleus  
GO:0017111   nucleoside-triphosphatase activity  
GO:0005524   ATP binding  
GO:0003678   DNA helicase activity  
GO:0000166   nucleotide binding  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 4 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
363 437 1fnn (A) 187 271 29.00 0.00007 1 0.59 -2.11
5 456 4ww4 (A) 3 458 59.00 0 1 1.52215 0.27
11 451 2c9o (C) 8 449 71.00 0 1 1.22528 1.05
12 451 2c9o (A) 9 449 71.00 0 1 1.66611 -0.18

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 60-80% percentile amastigotes, metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_127944)

Species Accession Gene Product
Arabidopsis thaliana AT5G22330   RuvB-like protein 1
Babesia bovis BBOV_III007680   RuvB DNA helicase, putative
Brugia malayi Bm1_15605   RuvB-like 1
Candida albicans CaO19.3129   similar to S. cerevisiae RVB1 (YDR190C) chromatin remodeling complex component
Candida albicans CaO19.10641   similar to S. cerevisiae RVB1 (YDR190C) chromatin remodeling complex component
Caenorhabditis elegans CELE_C27H6.2   Protein RUVB-1
Cryptosporidium hominis Chro.70240   Ruv DNA-helicase-related protein
Cryptosporidium parvum cgd7_2090   Ruv DNA-helicase-related protein
Dictyostelium discoideum DDB_G0293226   AAA ATPase domain-containing protein
Drosophila melanogaster Dmel_CG4003   pontin
Echinococcus granulosus EgrG_000851100   ruvB 1
Entamoeba histolytica EHI_040360   ruvB-like DNA helicase, putative
Echinococcus multilocularis EmuJ_000851100   ruvB 1
Giardia lamblia GL50803_9825   TBP-interacting protein TIP49
Homo sapiens ENSG00000175792   RuvB-like AAA ATPase 1
Leishmania braziliensis LbrM.20.3080   ruvb-like 1 DNA helicase, putative
Leishmania donovani LdBPK_343280.1   ruvb-like 1 DNA helicase, putative
Leishmania infantum LinJ.34.3280   ruvb-like 1 DNA helicase, putative
Leishmania major LmjF.34.3500   ruvb-like 1 DNA helicase, putative
Leishmania mexicana LmxM.33.3500   ruvb-like 1 DNA helicase, putative
Loa Loa (eye worm) LOAG_02114   pontin
Mus musculus ENSMUSG00000030079   RuvB-like protein 1
Neospora caninum NCLIV_061030   hypothetical protein
Oryza sativa 4327368   Os01g0837500
Oryza sativa 4342553   Os07g0178900
Plasmodium berghei PBANKA_0940900   RuvB-like helicase 2, putative
Plasmodium falciparum PF3D7_1106000   RuvB-like helicase 2
Plasmodium knowlesi PKNH_0903600   RuvB-like helicase 2, putative
Plasmodium vivax PVX_090975   RuvB-like helicase 2, putative
Plasmodium yoelii PY03371   unnamed protein product
Saccharomyces cerevisiae YDR190C   RuvB family ATP-dependent DNA helicase pontin
Schistosoma japonicum Sjp_0302040   ko:K04499 RuvB-like protein 1 (pontin 52), putative
Schistosoma mansoni Smp_064050.2   ruvb-related reptin and pontin
Schmidtea mediterranea mk4.000331.10   RuvB-like 1
Trypanosoma brucei gambiense Tbg972.4.1100   ruvB-like DNA helicase, putative
Trypanosoma brucei Tb927.4.1270   ruvB-like DNA helicase, putative
Trypanosoma congolense TcIL3000_4_770   ruvB-like DNA helicase, putative
Trypanosoma cruzi TcCLB.505989.82   ruvB-like DNA helicase, putative
Trypanosoma cruzi TcCLB.508693.80   ruvB-like DNA helicase, putative
Toxoplasma gondii TGME49_293372   TIP49 family protein
Toxoplasma gondii TGME49_219590   RuvB family 1 protein
Theileria parva TP04_0663   DNA helicase RuvB, putative
Trichomonas vaginalis TVAG_232800   conserved hypothetical protein

Essentiality

LmjF.34.3500 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.1270 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.1270 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.4.1270 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.1270 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C27H6.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_C27H6.2 Caenorhabditis elegans larval arrest wormbase
CELE_C27H6.2 Caenorhabditis elegans slow growth wormbase
CELE_C27H6.2 Caenorhabditis elegans sterile wormbase
YDR190C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0940900 Plasmodium berghei Essential plasmo
TGME49_293372 Toxoplasma gondii Probably essential sidik
TGME49_219590 Toxoplasma gondii Probably essential sidik
TGME49_293372 Toxoplasma gondii Essentiality uncertain sidik
TGME49_219590 Toxoplasma gondii Essentiality uncertain 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
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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

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
Species Known druggable target Linked compounds Reference
Homo sapiens RuvB-like AAA ATPase 1 Compounds References
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

111 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.

User comments

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Gene identifier LmjF.34.3500 (Leishmania major), ruvb-like 1 DNA helicase, putative
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