Detailed view for LmjF.36.3850

Basic information

TDR Targets ID: 25350
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.5235 | Length (AA): 225 | MW (Da): 25537 | Paralog Number: 0

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

PF03357   Snf7

Gene Ontology

Mouse over links to read term descriptions.
GO:0015031   protein transport  
GO:0007034   vacuolar transport  

Metabolic Pathways

Endocytosis (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
22 155 2gd5 (A) 13 165 13.00 0 0.08 0.63 -0.41
8 225 5j1i (A) 1032 1251 14.00 0 0.02 1.04299 -0.21
24 101 4abm (A) 21 97 32.00 0 0.22 0.742767 -1.14
25 137 5j45 (A) 18 129 33.00 0.00000012 0.63 0.975122 -0.87

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. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile amastigotes. 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_127666)

Species Accession Gene Product
Arabidopsis thaliana AT2G19830   vacuolar protein sorting-associated protein 32-1
Arabidopsis thaliana AT4G29160   vacuolar protein sorting-associated protein 32-2
Babesia bovis BBOV_III003020   conserved hypothetical protein
Brugia malayi Bm1_42425   Protein c20orf178 homolog
Candida albicans CaO19.13461   involved in glucose derepression
Candida albicans CaO19.6040   involved in glucose derepression
Caenorhabditis elegans CELE_C37C3.3   Protein VPS-32.2
Caenorhabditis elegans CELE_C56C10.3   Protein VPS-32.1
Cryptosporidium hominis Chro.50474   hypothetical protein
Cryptosporidium parvum cgd5_3790   SNF7 ortholog
Dictyostelium discoideum DDB_G0275573   SNF7 family protein
Drosophila melanogaster Dmel_CG8055   shrub
Echinococcus granulosus EgrG_001133200   charged multivesicular body protein 4b
Entamoeba histolytica EHI_169820   SNF7 family protein
Echinococcus multilocularis EmuJ_001133200   charged multivesicular body protein 4b
Homo sapiens ENSG00000101421   charged multivesicular body protein 4B
Homo sapiens ENSG00000254505   charged multivesicular body protein 4A
Leishmania braziliensis LbrM.35.4080   hypothetical protein, conserved
Leishmania donovani LdBPK_364040.1   Snf7, putative
Leishmania infantum LinJ.36.4040   hypothetical protein, conserved
Leishmania major LmjF.36.3850   hypothetical protein, conserved
Leishmania mexicana LmxM.36.3850   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_00407   charged multivesicular body protein 4b
Mus musculus ENSMUSG00000038467   charged multivesicular body protein 4B
Neospora caninum NCLIV_064280   hypothetical protein
Oryza sativa 4346566   Os09g0267600
Oryza sativa 4351360   Os12g0121400
Oryza sativa 4341494   Os06g0608500
Onchocerca volvulus OVOC10050  
Plasmodium berghei PBANKA_1456800   vacuolar-sorting protein SNF7, putative
Plasmodium falciparum PF3D7_1243500   vacuolar-sorting protein SNF7, putative
Plasmodium knowlesi PKNH_1462800   vacuolar-sorting protein SNF7, putative
Plasmodium vivax PVX_101075   vacuolar-sorting protein SNF7, putative
Plasmodium yoelii PY01275   nuclear protein snf7
Saccharomyces cerevisiae YLR025W   ESCRT-III subunit protein SNF7
Schistosoma japonicum Sjp_0305290   Charged multivesicular body protein 4b, putative
Schistosoma mansoni Smp_045710.2   snf7-related
Schistosoma mansoni Smp_045710.1   snf7-related
Schmidtea mediterranea mk4.005056.00   GH13992p
Schmidtea mediterranea mk4.003714.00   GH13992p
Trypanosoma brucei gambiense Tbg972.11.10810   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.9630   Snf7, putative
Trypanosoma congolense TcIL3000_0_20540   Snf7, putative
Trypanosoma congolense TcIL3000.11.10130   Snf7, putative
Trypanosoma cruzi TcCLB.511229.100   Snf7, putative
Trypanosoma cruzi TcCLB.511589.250   Snf7, putative
Theileria parva TP04_0143   hypothetical protein
Trichomonas vaginalis TVAG_459530   vacuolar sorting protein SNF7, putative

Essentiality

LmjF.36.3850 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.1390 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.1390 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.1390 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.1390 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C37C3.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_C37C3.3 Caenorhabditis elegans larval arrest wormbase
CELE_C37C3.3 Caenorhabditis elegans larval lethal wormbase
CELE_C37C3.3 Caenorhabditis elegans slow growth wormbase
CELE_C56C10.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_C56C10.3 Caenorhabditis elegans larval arrest wormbase
CELE_C56C10.3 Caenorhabditis elegans larval lethal wormbase
CELE_C56C10.3 Caenorhabditis elegans slow growth wormbase
Show/Hide essentiality data references
  • 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
  • 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
  • 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
  • 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
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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

Druggability index (range: 0 to 1): 0.3

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 LmjF.36.3850 (Leishmania major), hypothetical protein, conserved
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