Detailed view for LmjF.35.0110

Basic information

TDR Targets ID: 22553
Leishmania major, coatomer zeta subunit, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.3507 | Length (AA): 184 | MW (Da): 20292 | 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

PF01217   Clathrin adaptor complex small chain

Gene Ontology

Mouse over links to read term descriptions.
GO:0030117   membrane coat  
GO:0005515   protein binding  
GO:0006810   transport  
GO:0016192   vesicle-mediated transport  
GO:0006886   intracellular protein 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
6 163 1gw5 (S) 1 142 13.00 0 0.99 1 -1.25
6 163 1gw5 (S) 1 142 15.00 0 0.79 1.08 -1.3
3 157 3tjz (C) 9 146 38.00 0 1 1.27669 -0.85
109 181 2ezl (A) 90 157 34.00 0.33 0.57 0.740839 -0.23

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_127654)

Species Accession Gene Product
Arabidopsis thaliana AT1G60970   coatomer subunit zeta-1
Arabidopsis thaliana AT4G08520   putative coatomer subunit zeta-3
Arabidopsis thaliana AT3G09800   coatomer subunit zeta-2
Babesia bovis BBOV_III000560   nonclathrin coat protein zeta2-cop-related protein, putative
Brugia malayi Bm1_16625   coatomer zeta subunit
Candida albicans CaO19.11860   similar to S. cerevisiae RET3 (YPL010W) COPI vesicle coat component
Candida albicans CaO19.4382   similar to S. cerevisiae RET3 (YPL010W) COPI vesicle coat component
Caenorhabditis elegans CELE_F59E10.3   Protein F59E10.3
Cryptosporidium hominis Chro.70463   CG3948-PA
Cryptosporidium parvum cgd7_4180   hypothetical protein
Dictyostelium discoideum DDB_G0289523   clathrin adaptor complex, small chain family protein
Drosophila melanogaster Dmel_CG3948   Coat Protein (coatomer) zeta
Echinococcus granulosus EgrG_000139300   coatomer subunit zeta 1
Echinococcus granulosus EgrG_000145000   coatomer protein complex subunit zeta 1
Entamoeba histolytica EHI_122850   hypothetical protein
Echinococcus multilocularis EmuJ_000139300   coatomer protein complex, subunit zeta 1
Echinococcus multilocularis EmuJ_000145000   coatomer subunit zeta 1
Homo sapiens ENSG00000005243   coatomer protein complex, subunit zeta 2
Homo sapiens ENSG00000111481   coatomer protein complex, subunit zeta 1
Leishmania braziliensis LbrM.34.0150   coatomer zeta subunit, putative
Leishmania donovani LdBPK_350110.1   coatomer subunit zeta, putative
Leishmania infantum LinJ.35.0110   coatomer zeta subunit, putative
Leishmania major LmjF.35.0110   coatomer zeta subunit, putative
Leishmania mexicana LmxM.34.0110   coatomer zeta subunit, putative
Loa Loa (eye worm) LOAG_01432   hypothetical protein
Mus musculus ENSMUSG00000018672   coatomer protein complex, subunit zeta 2
Mus musculus ENSMUSG00000060992   coatomer protein complex, subunit zeta 1
Neospora caninum NCLIV_019600   hypothetical protein
Oryza sativa 4327378   Os01g0838800
Oryza sativa 4329152   Os02g0317400
Oryza sativa 4339020   Os05g0461000
Plasmodium berghei PBANKA_0717400   coatomer subunit zeta, putative
Plasmodium falciparum PF3D7_0415400   coatomer subunit zeta, putative
Plasmodium knowlesi PKNH_0507000   coatomer subunit zeta, putative
Plasmodium vivax PVX_089725   coatomer subunit zeta, putative
Plasmodium yoelii PY04027   nonclathrin coat protein zeta1-COP, putative
Saccharomyces cerevisiae YPL010W   Ret3p
Schistosoma japonicum Sjp_0043790   Coatomer subunit zeta-1, putative
Schistosoma mansoni Smp_020220.2   zeta-coat protein
Schistosoma mansoni Smp_020220.1   zeta-coat protein
Schmidtea mediterranea mk4.002734.01   Probable coatomer subunit zeta
Trypanosoma brucei gambiense Tbg972.10.5290   coatomer zeta subunit, putative
Trypanosoma brucei Tb927.10.4270   coatomer subunit zeta, putative
Trypanosoma congolense TcIL3000_10_3570   coatomer subunit zeta, putative
Trypanosoma cruzi TcCLB.506295.90   coatomer subunit zeta, putative
Trypanosoma cruzi TcCLB.511469.30   coatomer subunit zeta, putative
Toxoplasma gondii TGME49_280550   clathrin adaptor complex small chain subfamily protein
Trichomonas vaginalis TVAG_121700   zeta-coat protein, putative

Essentiality

LmjF.35.0110 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.4270 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.4270 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.4270 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.10.4270 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F59E10.3 Caenorhabditis elegans adult lethal wormbase
CELE_F59E10.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_F59E10.3 Caenorhabditis elegans larval lethal wormbase
CELE_F59E10.3 Caenorhabditis elegans sterile wormbase
YPL010W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0717400 Plasmodium berghei Essential plasmo
TGME49_280550 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • 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.
  • 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

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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Gene identifier LmjF.35.0110 (Leishmania major), coatomer zeta subunit, putative
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