Detailed view for LmjF.35.3320

Basic information

TDR Targets ID: 23145
Leishmania major, transport protein particle (TRAPP) subunit, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.8559 | Length (AA): 209 | MW (Da): 23648 | 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

PF04051   Transport protein particle (TRAPP) component

Gene Ontology

Mouse over links to read term descriptions.
GO:0030008   TRAPP complex  
GO:0048193   Golgi vesicle transport  

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
29 200 1sz7 (A) 13 171 18.00 0 0.8 1.09 -0.98
34 195 2c0j (B) 6 159 24.00 0 1 1.05 -1.1
1 118 3ohs (X) 1003 1136 31.00 0.2 0.13 0.652193 0.32
27 207 2j3w (B) 21 185 27.00 0 1 1.23173 -1.08

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 amastigotes. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile 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_128074)

Species Accession Gene Product
Arabidopsis thaliana AT5G58030   transport protein particle (TRAPP) component
Babesia bovis BBOV_II006470   41-2 protein antigen precursor
Brugia malayi Bm1_11955   trafficking protein particle complex 5
Candida albicans CaO19.7615   similar to S. cerevisiae TRS31 (YDR472W) TRAPP component involved in ER to Golgi membrane traffic
Caenorhabditis elegans CELE_Y57A10A.16   Protein Y57A10A.16
Cryptosporidium hominis Chro.60428   41-2 protein antigen precursor
Cryptosporidium parvum cgd6_3740   41-2 protein antigen precursor
Dictyostelium discoideum DDB_G0278643   hypothetical protein
Drosophila melanogaster Dmel_CG10153   TRAPP subunit 31 ortholog (S. cerevisiae)
Echinococcus granulosus EgrG_000347000   Trafficking protein particle complex subunit 5
Entamoeba histolytica EHI_110020   transport protein particle component Bet3 domain-containing protein
Echinococcus multilocularis EmuJ_000347000   Trafficking protein particle complex subunit 5
Giardia lamblia GL50803_9541   TRAPPC5/Trs31
Homo sapiens ENSG00000181029   trafficking protein particle complex 5
Leishmania braziliensis LbrM.34.3230   transport protein particle (TRAPP) subunit, putative
Leishmania donovani LdBPK_353370.1   transport protein particle (TRAPP) subunit, putative
Leishmania infantum LinJ.35.3370   transport protein particle (TRAPP) subunit, putative
Leishmania major LmjF.35.3320   transport protein particle (TRAPP) subunit, putative
Leishmania mexicana LmxM.34.3320   transport protein particle (TRAPP) subunit, putative
Loa Loa (eye worm) LOAG_06210   trafficking protein particle complex 5
Mus musculus 66682   trafficking protein particle complex 5
Neospora caninum NCLIV_037250   transport protein particle component Bet3 domain- containing protein, putative
Oryza sativa 4327685   Os01g0708600
Plasmodium berghei PBANKA_0611000   trafficking protein particle complex subunit 5, putative
Plasmodium falciparum PF3D7_1437800   trafficking protein particle complex subunit 5, putative
Plasmodium knowlesi PKNH_0424500   trafficking protein particle complex subunit 5, putative
Plasmodium vivax PVX_084655   trafficking protein particle complex subunit 5, putative
Plasmodium yoelii PY05174   41-2 protein antigen precursor-related
Saccharomyces cerevisiae YDR472W   Trs31p
Schmidtea mediterranea mk4.000864.00   Trafficking protein particle complex subunit 5
Trypanosoma brucei gambiense Tbg972.9.7370   transport protein particle (TRAPP) subunit, putative
Trypanosoma brucei Tb927.9.12150   transport protein particle (TRAPP) subunit, putative
Trypanosoma congolense TcIL3000_9_5010   transport protein particle (TRAPP) subunit, putative
Trypanosoma cruzi TcCLB.510663.57   transport protein particle (TRAPP) subunit, putative
Trypanosoma cruzi TcCLB.510737.40   transport protein particle (TRAPP) subunit, putative
Toxoplasma gondii TGME49_269140   transport protein particle component, Bet3 domain-containing protein
Theileria parva TP02_0612   hypothetical protein, conserved
Trichomonas vaginalis TVAG_246670   trafficking protein particle complex subunit, putative

Essentiality

LmjF.35.3320 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.3210 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.3210 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.3210 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.3210 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
YDR472W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0611000 Plasmodium berghei Essential plasmo
TGME49_269140 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • 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
  • 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
  • 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

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.35.3320 (Leishmania major), transport protein particle (TRAPP) subunit, putative
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