Detailed view for LmjF.36.6430

Basic information

TDR Targets ID: 29212
Leishmania major, protein transport protein Sec23-like protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.2282 | Length (AA): 850 | MW (Da): 93997 | 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

PF04810   Sec23/Sec24 zinc finger
PF04811   Sec23/Sec24 trunk domain
PF04815   Sec23/Sec24 helical domain
PF08033   Sec23/Sec24 beta-sandwich domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0030127   COPII vesicle coat  
GO:0008270   zinc ion binding  
GO:0005515   protein binding  
GO:0006888   ER to Golgi vesicle-mediated transport  
GO:0006886   intracellular protein transport  

Structural information

Modbase 3D models:

There are 6 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
58 746 1pcx (A) 134 813 18.00 0 1 0.92 -0.18
110 850 1pd0 (A) 170 926 17.00 0 1 0.81 -0.38
114 849 1m2o (A) 3 765 39.00 0 1 1.41 -1.35
76 845 1m2v (B) 66 922 17.00 0 1 0.912982 0.31
114 849 5kyn (A) 8 762 38.00 0 1 1.36598 -0.65
121 849 1m2o (A) 14 765 38.00 0 1 1.32415 -0.57

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
Lower 20-40% 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_127203)

Species Accession Gene Product
Arabidopsis thaliana AT5G43670   sec23/sec24-like transport protein
Arabidopsis thaliana AT1G05520   sec23/sec24-like transport protein
Arabidopsis thaliana AT3G23660   Sec23/Sec24 protein transport family protein
Arabidopsis thaliana AT4G14160   sec23/sec24-like transport protein
Arabidopsis thaliana AT2G21630   sec23/sec24-like transport protein
Babesia bovis BBOV_II007590   sec23 protein
Brugia malayi Bm1_52435   putative Sec23 protein
Candida albicans CaO19.1254   one of three genes similar to S. cerevisiae SEC23 (YPR181C) cytoplasmic GTPase-activating protein involved in COP II vesicle coa
Candida albicans CaO19.8839   one of three genes similar to S. cerevisiae SEC23 (YPR181C) cytoplasmic GTPase-activating protein involved in COP II vesicle coa
Caenorhabditis elegans CELE_Y113G7A.3   Protein SEC-23
Cryptosporidium hominis Chro.30216   transport protein
Cryptosporidium parvum cgd3_1820   putative Sec23
Dictyostelium discoideum DDB_G0281985   hypothetical protein
Drosophila melanogaster Dmel_CG1250   Sec23 ortholog (S. cerevisiae)
Echinococcus granulosus EgrG_000529300   protein transport protein Sec23A
Entamoeba histolytica EHI_008730   Sec23 protein, putative
Entamoeba histolytica EHI_175480   Sec23 protein, putative
Echinococcus multilocularis EmuJ_000529300   protein transport protein Sec23A
Giardia lamblia GL50803_9376   Sec23
Homo sapiens ENSG00000100934   Sec23 homolog A (S. cerevisiae)
Homo sapiens ENSG00000101310   Sec23 homolog B (S. cerevisiae)
Leishmania braziliensis LbrM.35.6760   protein transport protein Sec23-like protein
Leishmania donovani LdBPK_366710.1   protein transport protein Sec23-like protein
Leishmania infantum LinJ.36.6710   protein transport protein Sec23-like protein
Leishmania major LmjF.36.6430   protein transport protein Sec23-like protein
Leishmania mexicana LmxM.36.6430   protein transport protein Sec23-like protein
Loa Loa (eye worm) LOAG_03100   hypothetical protein
Mus musculus ENSMUSG00000027429   SEC23B (S. cerevisiae)
Mus musculus ENSMUSG00000020986   SEC23A (S. cerevisiae)
Neospora caninum NCLIV_043180   hypothetical protein
Oryza sativa 4347283   Os09g0460200
Oryza sativa 4334068   Os03g0742800
Oryza sativa 4345819   Os08g0474700
Plasmodium berghei PBANKA_0708000   protein transport protein SEC23, putative
Plasmodium falciparum PF3D7_0822600   protein transport protein SEC23
Plasmodium knowlesi PKNH_1316600   protein transport protein SEC23, putative
Plasmodium vivax PVX_089235   protein transport protein SEC23, putative
Plasmodium yoelii PY02497   putative Sec23 protein
Saccharomyces cerevisiae YPR181C   GTPase-activating protein SEC23
Schistosoma japonicum Sjp_0007260   Protein transport protein Sec23A, putative
Schistosoma japonicum Sjp_0317160   Protein transport protein Sec23A, putative
Schistosoma mansoni Smp_099310   protein transport protein sec23
Schmidtea mediterranea mk4.001214.01  
Trypanosoma brucei gambiense Tbg972.10.9490   protein transport protein Sec23A, putative
Trypanosoma brucei Tb927.10.7740   protein transport protein SEC23
Trypanosoma congolense TcIL3000_10_6600   protein transport protein Sec23A, putative
Trypanosoma cruzi TcCLB.508231.230   protein transport protein Sec23A, putative
Trypanosoma cruzi TcCLB.506249.20   protein transport protein Sec23A, putative
Toxoplasma gondii TGME49_291680   Sec23/Sec24 trunk domain-containing protein
Theileria parva TP02_0701   Sec23, putative
Trichomonas vaginalis TVAG_038520   protein transport protein sec23, putative
Trichomonas vaginalis TVAG_078060   protein transport protein sec23, putative

Essentiality

LmjF.36.6430 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.7740 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.7740 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.7740 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.7740 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y113G7A.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y113G7A.3 Caenorhabditis elegans larval lethal wormbase
CELE_Y113G7A.3 Caenorhabditis elegans slow growth wormbase
CELE_Y113G7A.3 Caenorhabditis elegans sterile wormbase
YPR181C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0708000 Plasmodium berghei Essential plasmo
TGME49_291680 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
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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.36.6430 (Leishmania major), protein transport protein Sec23-like protein
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