Detailed view for LmjF.36.2230

Basic information

TDR Targets ID: 26466
Leishmania major, vacuolar protein sorting-associated protein 45- like protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.1 | Length (AA): 559 | MW (Da): 62622 | Paralog Number: 1

Signal peptide: N | GPI Anchor: Y | 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

PF00995   Sec1 family

Gene Ontology

Mouse over links to read term descriptions.
GO:0016192   vesicle-mediated transport  
GO:0006904   vesicle docking during exocytosis  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 5 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
1 558 1epu (A) 12 590 19.00 0 1 1.12 -0.7
6 119 1y9j (A) 33 147 26.00 0 0.99 0.53 -0.72
9 559 1dn1 (A) 26 588 19.00 0 1 1.17 -0.52
1 559 4jeh (A) 18 588 19.00 0 1 1.1639 0.17
6 120 1y9j (A) 33 145 28.00 0 0.9 0.524625 -0.06

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
Lower 20-40% 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_127632)

Species Accession Gene Product
Arabidopsis thaliana AT1G77140   vacuolar protein sorting 45
Babesia bovis BBOV_III002100   Sec1 family protein
Brugia malayi Bm1_32805   Vacuolar protein sorting-associated protein 45, putative
Candida albicans CaO19.13063   Sec1 family essential for vacuolar protein sorting
Candida albicans CaO19.5618   Sec1 family essential for vacuolar protein sorting
Caenorhabditis elegans CELE_C44C1.4   Protein VPS-45, isoform B
Cryptosporidium hominis Chro.50427   hypothetical protein
Cryptosporidium parvum cgd5_4180   vacuolar protein-sorting protein VPS45, putative
Dictyostelium discoideum DDB_G0290213   Sec1-like family protein
Drosophila melanogaster Dmel_CG8228   Vacuolar protein sorting 45
Echinococcus granulosus EgrG_001073000   vacuolar protein sorting associated protein 45
Entamoeba histolytica EHI_160900   Sec1 family protein
Entamoeba histolytica EHI_154290   Sec1 family protein
Echinococcus multilocularis EmuJ_001073000   vacuolar protein sorting associated protein 45
Homo sapiens ENSG00000136631   vacuolar protein sorting 45 homolog (S. cerevisiae)
Leishmania braziliensis LbrM.35.2470   vacuolar protein sorting-associated protein 45- like protein
Leishmania braziliensis LbrM.35.0550   vacuolar protein sorting-associated protein, putative
Leishmania donovani LdBPK_360490.1   vacuolar protein sorting-associated protein, putative
Leishmania donovani LdBPK_362360.1   vacuolar protein sorting-associated protein 45- like protein
Leishmania infantum LinJ.36.0490   vacuolar protein sorting-associated protein, putative
Leishmania infantum LinJ.36.2360   vacuolar protein sorting-associated protein 45- like protein
Leishmania major LmjF.36.2230   vacuolar protein sorting-associated protein 45- like protein
Leishmania major LmjF.36.0460   vacuolar protein sorting-associated protein 45, putative
Leishmania mexicana LmxM.36.0460   vacuolar protein sorting-associated protein, putative
Leishmania mexicana LmxM.36.2230   vacuolar protein sorting-associated protein 45- like protein
Loa Loa (eye worm) LOAG_05219   vacuolar protein sorting-associated protein 45
Loa Loa (eye worm) LOAG_14255   hypothetical protein
Mus musculus ENSMUSG00000015747   vacuolar protein sorting 45 (yeast)
Neospora caninum NCLIV_035750   vacuolar protein sorting-associated protein, putative
Oryza sativa 4329228   Os02g0437800
Plasmodium berghei PBANKA_0313100   vacuolar protein sorting-associated protein 45, putative
Plasmodium falciparum PF3D7_0216400   vacuolar protein sorting-associated protein 45, putative
Plasmodium knowlesi PKNH_0404500   vacuolar protein sorting-associated protein 45, putative
Plasmodium vivax PVX_002720   vacuolar protein sorting-associated protein 45, putative
Plasmodium yoelii PY01251   VPS45-like protein
Saccharomyces cerevisiae YGL095C   Vps45p
Schistosoma japonicum Sjp_0073650   Vacuolar protein sorting-associated protein 45, putative
Schistosoma mansoni Smp_104520   vacuolar protein sorting-associated
Schmidtea mediterranea mk4.000345.08   Vacuolar protein sorting-associated protein 45
Trypanosoma brucei gambiense Tbg972.10.8280   vacuolar protein sorting-associated protein 45, putative
Trypanosoma brucei Tb927.10.6780   vacuolar protein sorting-associated protein 45, putative
Trypanosoma congolense TcIL3000_10_5840   vacuolar protein sorting-associated protein 45, putative
Trypanosoma cruzi TcCLB.510187.190   vacuolar protein sorting-associated protein, putative
Trypanosoma cruzi TcCLB.504203.20   sec1-like protein, putative
Toxoplasma gondii TGME49_271060   Sec1 family protein
Theileria parva TP03_0567   vacuolar sorting protein 45, putative
Trichomonas vaginalis TVAG_231570   vesicle protein sorting-associated, putative
Trichomonas vaginalis TVAG_250200   vesicle protein sorting-associated, putative
Trichomonas vaginalis TVAG_353230   vacuolar protein sorting-associated, putative
Trichomonas vaginalis TVAG_493200   vesicle protein sorting-associated, putative
Trichomonas vaginalis TVAG_416950   vesicle protein sorting-associated, putative
Trichomonas vaginalis TVAG_024030   vesicle protein sorting-associated, putative
Trichomonas vaginalis TVAG_582000   vesicle protein sorting-associated, putative

Essentiality

LmjF.36.2230 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.6780 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.6780 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.6780 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.10.6780 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0313100 Plasmodium berghei Essential plasmo
TGME49_271060 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84

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 LmjF.36.2230 (Leishmania major), vacuolar protein sorting-associated protein 45- like protein
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