Detailed view for LmjF.36.6770

Basic information

TDR Targets ID: 24209
Leishmania major, beta-adaptin, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.7549 | Length (AA): 746 | MW (Da): 82217 | 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

Gene Ontology

Mouse over links to read term descriptions.
GO:0030117   membrane coat  
GO:0030276   clathrin binding  
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 9 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
1 658 1qgr (A) 61 863 11.00 0 1 0.84 -0.59
1 562 1w63 (A) 7 585 17.00 0 1 1 -0.73
2 437 1wa5 (B) 18 514 13.00 0 1 0.64 -0.91
21 599 1w63 (B) 2 583 37.00 0 1 1.32 -1.01
34 720 1u6g (C) 8 833 12.00 0.0000000000031 1 1.03 -0.28
177 397 2db0 (A) 30 246 14.00 0 0.82 0.53 -1.45
23 617 4uqi (B) 4 635 36.00 0 1 1.24609 -0.32
106 260 4u2x (D) 340 503 16.00 0 0.87 0.399275 -0.73
106 324 4hxt (A) 3 239 19.00 0 1 0.589066 -1.17

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_127081)

Species Accession Gene Product
Arabidopsis thaliana AT4G11380   beta-adaptin-like protein B
Arabidopsis thaliana AT4G23460   beta-adaptin-like protein C
Babesia bovis BBOV_III006690   adaptin N terminal domain containing protein
Brugia malayi Bm1_28810   adaptor-related protein complex 2, beta 1 subunit, putative
Candida albicans CaO19.7861   similar to S. cerevisiae APL2 (YKL135C) Beta-adaptin, large subunit of the clathrin-associated protein AP-1 complex
Candida albicans CaO19.7212   similar to S. cerevisiae APL1 (YJR005W) beta-adaptin, large subunit of the clathrin-associated protein AP-2 complex
Candida albicans CaO19.231   similar to S. cerevisiae APL2 (YKL135C) Beta-adaptin, large subunit of the clathrin-associated protein AP-1 complex
Caenorhabditis elegans CELE_Y71H2B.10   Protein APB-1, isoform C
Cryptosporidium hominis Chro.40489   adapter-related protein complex 1 beta 1 subunit (Beta-adaptin 1) (Adaptor protein complex AP-1 beta-1 subunit) (Golgi adaptor H
Cryptosporidium parvum cgd4_4300   beta adaptin
Dictyostelium discoideum DDB_G0279141   adaptor-related protein complex 1, beta 1 subunit
Drosophila melanogaster Dmel_CG12532   Adaptor Protein complex 1/2, beta subunit
Echinococcus granulosus EgrG_000240100   AP 1 complex subunit beta 1
Entamoeba histolytica EHI_013040   adaptor protein (AP) family protein
Entamoeba histolytica EHI_023600   adaptor protein (AP) family protein
Echinococcus multilocularis EmuJ_000240100   AP 1 complex subunit beta 1
Giardia lamblia GL50803_21423   Beta adaptin
Homo sapiens ENSG00000006125   adaptor-related protein complex 2, beta 1 subunit
Homo sapiens ENSG00000100280   adaptor-related protein complex 1, beta 1 subunit
Leishmania donovani LdBPK_367080.1   beta adaptin, putative
Leishmania infantum LinJ.36.7080   beta-adaptin, putative
Leishmania major LmjF.36.6770   beta-adaptin, putative
Leishmania mexicana LmxM.36.6770   beta-adaptin, putative
Loa Loa (eye worm) LOAG_01215   APB-1 protein
Loa Loa (eye worm) LOAG_12950   hypothetical protein
Mus musculus ENSMUSG00000035152   adaptor-related protein complex 2, beta 1 subunit
Mus musculus ENSMUSG00000009090   adaptor protein complex AP-1, beta 1 subunit
Neospora caninum NCLIV_017020   hypothetical protein
Oryza sativa 4332864   Os03g0355600
Plasmodium berghei PBANKA_1242700   AP-1 complex subunit beta, putative
Plasmodium falciparum PF3D7_0528100   AP-1 complex subunit beta, putative
Plasmodium knowlesi PKNH_1004600   AP-1 complex subunit beta, putative
Plasmodium vivax PVX_079845   AP-1 complex subunit beta, putative
Plasmodium yoelii PY01282   beta adaptin-like protein
Saccharomyces cerevisiae YJR005W   Apl1p
Saccharomyces cerevisiae YKL135C   Apl2p
Schistosoma japonicum Sjp_0027310   AP-1 complex subunit beta-1, putative
Schistosoma japonicum Sjp_0061190   AP-2 complex subunit beta-1, putative
Schistosoma mansoni Smp_034870   adapter-related protein complex 1 beta subunit
Schmidtea mediterranea mk4.008993.00  
Trypanosoma brucei Tb927.10.8040   beta adaptin, putative
Trypanosoma congolense TcIL3000_10_6910   beta adaptin, putative
Trypanosoma cruzi TcCLB.506247.200   beta adaptin, putative
Toxoplasma gondii TGME49_240870   beta adaptin protein, putative
Theileria parva TP02_0304   adaptin beta subunit, putative
Trichomonas vaginalis TVAG_456570   conserved hypothetical protein
Trichomonas vaginalis TVAG_373190   conserved hypothetical protein
Trichomonas vaginalis TVAG_477740   AP-2 complex subunit beta-1, putative
Trichomonas vaginalis TVAG_397260   conserved hypothetical protein
Trichomonas vaginalis TVAG_035540   conserved hypothetical protein
Trichomonas vaginalis TVAG_287780   conserved hypothetical protein
Trichomonas vaginalis TVAG_430250   conserved hypothetical protein
Trichomonas vaginalis TVAG_055150   conserved hypothetical protein

Essentiality

LmjF.36.6770 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.8040 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.8040 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.8040 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.8040 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y71H2B.10 Caenorhabditis elegans embryonic arrest wormbase
CELE_Y71H2B.10 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y71H2B.10 Caenorhabditis elegans larval arrest wormbase
CELE_Y71H2B.10 Caenorhabditis elegans larval lethal wormbase
CELE_Y71H2B.10 Caenorhabditis elegans sterile wormbase
PBANKA_1242700 Plasmodium berghei Essential plasmo
TGME49_240870 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.

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.36.6770 (Leishmania major), beta-adaptin, putative
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