Detailed view for LmjF.34.3970

Basic information

TDR Targets ID: 23627
Leishmania major, adaptor gamma-1 chain, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.473 | Length (AA): 812 | MW (Da): 89247 | 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

PF01602   Adaptin N terminal region
PF02883   Adaptin C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0030121   AP-1 adaptor complex  
GO:0044431   Golgi apparatus part  
GO:0030131   clathrin adaptor complex  
GO:0030117   membrane coat  
GO:0005794   Golgi apparatus  
GO:0008565   protein transporter activity  
GO:0005515   protein binding  
GO:0005488   binding  
GO:0016192   vesicle-mediated transport  
GO:0015031   protein 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 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
1 701 2bpt (A) 69 844 10.00 0 1 0.76 -0.6
6 603 1w63 (A) 4 590 35.00 0 1 1.14 -1.39
2 674 1u6g (C) 17 778 12.00 0 1 0.872218 0.56
7 599 4p6z (G) 5 587 35.00 0 1 1.1757 -0.61
700 810 2a7b (A) 703 815 16.00 0.000000000012 1 0.386699 -0.94

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_127319)

Species Accession Gene Product
Arabidopsis thaliana AT1G23900   AP-1 complex subunit gamma-1
Arabidopsis thaliana AT1G60070   AP-1 complex subunit gamma-2
Babesia bovis BBOV_II003680   adaptin N terminal region family protein
Brugia malayi Bm1_49090   gamma1-adaptin
Candida albicans CaO19.10363   similar to S. cerevisiae APL4 (YPR029C) Gamma-Adaptin, large subunit of the clathrin-associated protein AP-2 complex
Candida albicans CaO19.2844   similar to S. cerevisiae APL4 (YPR029C) Gamma-Adaptin, large subunit of the clathrin-associated protein AP-2 complex
Caenorhabditis elegans CELE_Y105E8A.9   Protein APG-1
Cryptosporidium hominis Chro.50468   adaptor-related protein complex 1, gamma 2 subunit; gamma2-adaptin; clathrin-associated/assembly/adaptor protein, large, gamma-2
Cryptosporidium parvum cgd5_3850   adapter-protein complex 1 gamma subunit (gamma adaptin)
Dictyostelium discoideum DDB_G0281957   AP-1 complex gamma 1 subunit
Drosophila melanogaster Dmel_CG9113   Adaptor Protein complex 1, gamma subunit
Echinococcus granulosus EgrG_000669200   AP 1 complex subunit gamma
Entamoeba histolytica EHI_196890   gamma-adaptin, putative
Echinococcus multilocularis EmuJ_000669200   AP 1 complex subunit gamma
Giardia lamblia GL50803_16364   Gamma adaptin
Homo sapiens ENSG00000166747   adaptor-related protein complex 1, gamma 1 subunit
Homo sapiens ENSG00000213983   adaptor-related protein complex 1, gamma 2 subunit
Leishmania braziliensis LbrM.20.3600   adaptor gamma-1 chain, putative
Leishmania donovani LdBPK_343800.1   AP-1 adapter complex gamma subunit, putative
Leishmania infantum LinJ.34.3800   adaptor gamma-1 chain, putative
Leishmania major LmjF.34.3970   adaptor gamma-1 chain, putative
Leishmania mexicana LmxM.33.3970   adaptor gamma-1 chain, putative
Loa Loa (eye worm) LOAG_06513   gamma1-adaptin
Loa Loa (eye worm) LOAG_12234   hypothetical protein
Mus musculus ENSMUSG00000031731   adaptor protein complex AP-1, gamma 1 subunit
Mus musculus ENSMUSG00000040701   adaptor protein complex AP-1, gamma 2 subunit
Neospora caninum NCLIV_056950   hypothetical protein
Oryza sativa 4331060   Os02g0805000
Oryza sativa 4340249   Os06g0167100
Plasmodium berghei PBANKA_1319200   AP-1 complex subunit gamma, putative
Plasmodium falciparum PF3D7_1455500   AP-1 complex subunit gamma, putative
Plasmodium knowlesi PKNH_1226300   AP-1 complex subunit gamma, putative
Plasmodium vivax PVX_117690   AP-1 complex subunit gamma, putative
Plasmodium yoelii PY05746   adapter-related protein complex 1 gamma 1 subunit
Saccharomyces cerevisiae YPR029C   Apl4p
Schistosoma japonicum Sjp_0066820   AP-1 complex subunit gamma-1, putative
Schistosoma mansoni Smp_092530.1   adapter-related protein complex 1 gamma subunit (gamma-adaptin)
Schistosoma mansoni Smp_092530.2   adapter-related protein complex 1 gamma subunit (gamma-adaptin)
Schmidtea mediterranea mk4.001982.04   Adaptor protein complex 1, gamma subunit
Schmidtea mediterranea mk4.000232.05   AP-1 complex subunit gamma-like 2
Schmidtea mediterranea mk4.000232.04   Adaptor protein complex 1, gamma subunit
Trypanosoma brucei gambiense Tbg972.4.540   AP-1 adapter complex gamma subunit, putative
Trypanosoma brucei Tb927.4.760   AP-1 adapter complex gamma subunit, putative
Trypanosoma cruzi TcCLB.508257.260   AP-1 adapter complex gamma subunit, putative
Toxoplasma gondii TGME49_313670   adaptin n terminal region domain-containing protein
Theileria parva TP04_0213   adaptin gamma subunit, putative
Trichomonas vaginalis TVAG_405400   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_344080   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_009720   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_248880   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_146900   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_077020   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_426420   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_387740   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_230820   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_459350   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_129070   adaptin, alpha/gamma/epsilon, putative
Trichomonas vaginalis TVAG_448850   adaptin, alpha/gamma/epsilon, putative

Essentiality

LmjF.34.3970 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.760 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.760 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.4.760 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.760 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y105E8A.9 Caenorhabditis elegans embryonic arrest wormbase
CELE_Y105E8A.9 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y105E8A.9 Caenorhabditis elegans larval arrest wormbase
CELE_Y105E8A.9 Caenorhabditis elegans larval lethal wormbase
CELE_Y105E8A.9 Caenorhabditis elegans slow growth wormbase
PBANKA_1319200 Plasmodium berghei Essential plasmo
TGME49_313670 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.

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.34.3970 (Leishmania major), adaptor gamma-1 chain, putative
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