Detailed view for LmjF.01.0320

Basic information

TDR Targets ID: 23583
Leishmania major, poly(A) export protein, putative

Source Database / ID:  TriTrypDB  GeneDB

pI: 7.6474 | Length (AA): 307 | MW (Da): 33542 | 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

PF00400   WD domain, G-beta repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0006406   mRNA export from nucleus  
GO:0005515   protein binding  

Metabolic Pathways

Structural information

Modbase 3D models:

There are 8 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
3 303 1yfq (A) 25 335 17.00 0 1 1.01 0.15
3 295 1erj (A) 358 709 16.00 0 1 0.99 -0.32
4 285 1erj (A) 359 699 16.00 0 0.99 1.09 -0.16
7 307 3mmy (A) 60 359 22.00 0 1 1.14396 0.69
8 297 3mmy (A) 61 348 32.00 0 1 1.22383 0.44
36 111 4cy3 (A) 113 186 27.00 0.011 0.59 0.529757 -0.4
94 124 4buj (H) 304 355 39.00 0.2 0.64 0.566177 -0.18
204 254 4j73 (A) 218 266 45.00 0.0001 0.27 0.548324 0.48

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_128334)

Species Accession Gene Product
Arabidopsis thaliana AT1G80670   Rae1-like protein
Babesia bovis BBOV_IV001150   mRNA export protein, putative
Brugia malayi Bm1_36125   Hypothetical 41.4 kDa Trp-Asp repeats containing protein F10G8.3 inchromosome I
Candida albicans CaO19.1095   WD40 repeat protein similar to S. cerevisiae GLE2 (YER107C) nuclear pore protein required for poly(A)+ RNA export
Candida albicans CaO19.8697   WD40 repeat protein similar to S. cerevisiae GLE2 (YER107C) nuclear pore protein required for poly(A)+ RNA export
Caenorhabditis elegans CELE_F10G8.3   Protein RAE-1
Cryptosporidium hominis Chro.60529   mRNA export protein
Cryptosporidium parvum cgd6_4610   mRNA export protein, putative
Dictyostelium discoideum DDB_G0283835   WD40 repeat-containing protein
Drosophila melanogaster Dmel_CG9862   CG9862 gene product from transcript CG9862-RA
Echinococcus granulosus EgrG_000796200   mRNA export protein rae1
Entamoeba histolytica EHI_118780   WD domain containing protein
Echinococcus multilocularis EmuJ_000796200   mRNA export protein rae1
Homo sapiens 8480   ribonucleic acid export 1
Leishmania braziliensis LbrM.01.0360   poly(A) export protein, putative
Leishmania donovani LdBPK_010330.1   poly(A) export protein, putative
Leishmania infantum LinJ.01.0330   poly(A) export protein, putative
Leishmania major LmjF.01.0320   poly(A) export protein, putative
Leishmania mexicana LmxM.01.0320   poly(A) export protein, putative
Loa Loa (eye worm) LOAG_06150   nucleoporin-17
Mus musculus ENSMUSG00000027509   RAE1 RNA export 1 homolog (S. pombe)
Neospora caninum NCLIV_034950   poly(A) RNA export protein, putative
Oryza sativa 4326570   Os01g0635400
Oryza sativa 4344798   Os08g0176800
Saccharomyces cerevisiae YER107C   RNA export factor GLE2
Schistosoma japonicum Sjp_0211490   mRNA export factor, putative
Schistosoma mansoni Smp_060170   mRNA export protein rae1-related
Schmidtea mediterranea mk4.002415.04   Nucleoporin-17
Schmidtea mediterranea mk4.025204.01   Nucleoporin-17
Schmidtea mediterranea mk4.055337.00   Nucleoporin-17
Schmidtea mediterranea mk4.025204.00  
Schmidtea mediterranea mk4.002415.03   Nucleoporin-17
Schmidtea mediterranea mk4.008842.06   Nucleoporin-17
Schmidtea mediterranea mk4.008842.05   Nucleoporin-17
Trypanosoma brucei gambiense Tbg972.9.1970   poly(A) export protein, putative
Trypanosoma brucei Tb927.9.3760   Nucleoporin GLE2
Trypanosoma congolense TcIL3000_0_13680   poly(A) export protein, putative
Trypanosoma congolense TcIL3000_9_1220   poly(A) export protein, putative
Trypanosoma cruzi TcCLB.511577.130   poly(A) export protein, putative
Trypanosoma cruzi TcCLB.509339.4   poly(A) export protein, putative
Toxoplasma gondii TGME49_272350   mRNA export protein
Theileria parva TP01_0140   mRNA export protein, putative
Trichomonas vaginalis TVAG_011560   poly(A)+ RNA export protein, putative

Essentiality

LmjF.01.0320 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.160.2360 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.160.2360 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.160.2360 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb09.160.2360 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F10G8.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_F10G8.3 Caenorhabditis elegans slow growth wormbase
CELE_F10G8.3 Caenorhabditis elegans sterile wormbase
TGME49_272350 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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
  • 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.
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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.01.0320 (Leishmania major), poly(A) export protein, putative
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