Detailed view for LmjF.34.2590

Basic information

TDR Targets ID: 25673
Leishmania major, adaptor complex subunit medium chain 3, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.4953 | Length (AA): 468 | MW (Da): 51240 | 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

PF00928   Adaptor complexes medium subunit family

Gene Ontology

Mouse over links to read term descriptions.
GO:0030131   clathrin adaptor complex  
GO:0030117   membrane coat  
GO:0005515   protein binding  
GO:0016192   vesicle-mediated transport  
GO:0006886   intracellular protein transport  
GO:0006810   transport  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 7 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
1 466 1gw5 (M) 1 434 27.00 0 1 1.15 -0.26
1 142 1gw5 (S) 1 142 19.00 0 0.82 0.65 -1.95
1 142 2vgl (S) 1 142 19.00 0 0.98 0.665819 -1.09
1 147 4p6z (S) 1 146 14.00 0.00000000023 0.64 0.634303 -1.3
1 466 2jkr (M) 1 434 26.00 0 1 1.06313 0.52
2 466 1w63 (M) 3 421 30.00 0 1 1.09299 0.7
333 382 2lie (A) 93 141 37.00 0.12 0.4 0.457938 0.27

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
Mid 40-60% 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_129247)

Species Accession Gene Product
Arabidopsis thaliana AT1G56590   protein ZIG SUPPRESSOR 4
Brugia malayi Bm1_30830   Adaptin or adaptin-related protein protein 7
Caenorhabditis elegans CELE_F53H8.1   Protein APM-3
Dictyostelium discoideum DDB_G0277901   clathrin-adaptor medium chain AP-3
Drosophila melanogaster Dmel_CG3035   carmine
Echinococcus granulosus EgrG_000610600   AP 3 complex subunit mu 1
Entamoeba histolytica EHI_099240   clathrin-adaptor medium chain, putative
Echinococcus multilocularis EmuJ_000610600   AP 3 complex subunit mu 1
Homo sapiens ENSG00000185009   adaptor-related protein complex 3, mu 1 subunit
Homo sapiens ENSG00000070718   adaptor-related protein complex 3, mu 2 subunit
Leishmania braziliensis LbrM.20.2150   adaptor complex subunit medium chain 3, putative
Leishmania donovani LdBPK_342420.1   AP-3 complex subunit mu, putative
Leishmania infantum LinJ.34.2420   adaptor complex subunit medium chain 3, putative
Leishmania major LmjF.34.2590   adaptor complex subunit medium chain 3, putative
Leishmania mexicana LmxM.33.2590   adaptor complex subunit medium chain 3, putative
Loa Loa (eye worm) LOAG_13462   hypothetical protein
Loa Loa (eye worm) LOAG_02604   hypothetical protein
Loa Loa (eye worm) LOAG_02605   hypothetical protein
Mus musculus 55946   adaptor-related protein complex 3, mu 1 subunit
Mus musculus ENSMUSG00000031539   adaptor-related protein complex 3, mu 2 subunit
Oryza sativa 4338648   Os05g0383100
Schistosoma japonicum Sjp_0049390   AP-3 complex subunit mu-1, putative
Schistosoma mansoni Smp_027010.2   clathrin coat adaptor ap3 medium chain
Schistosoma mansoni Smp_027010.1   clathrin coat adaptor ap3 medium chain
Schmidtea mediterranea mk4.000685.06  
Schmidtea mediterranea mk4.001966.01  
Trypanosoma brucei gambiense Tbg972.4.1940   mu-adaptin 3, putative,adaptor complex AP-3 medium subunit, putative
Trypanosoma brucei Tb927.4.2020   AP-3 complex subunit mu, putative
Trypanosoma congolense TcIL3000_4_1760   AP-3 complex subunit mu, putative
Trypanosoma cruzi TcCLB.510877.50   AP-3 complex subunit mu, putative
Trichomonas vaginalis TVAG_476310   clathrin coat adaptor ap3 medium chain, putative
Trichomonas vaginalis TVAG_136750   clathrin coat adaptor ap3 medium chain, putative
Trichomonas vaginalis TVAG_450230   clathrin coat associated protein ap-50, putative

Essentiality

LmjF.34.2590 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.2020 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.2020 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.2020 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.2020 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F53H8.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_F53H8.1 Caenorhabditis elegans larval arrest wormbase
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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

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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier LmjF.34.2590 (Leishmania major), adaptor complex subunit medium chain 3, putative
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