Detailed view for LmjF.27.0380

Basic information

TDR Targets ID: 22511
Leishmania major, nucleoporin, putative,serine peptidase, Clan SP, family S59, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.0923 | Length (AA): 1556 | MW (Da): 159323 | 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

PF04096   Nucleoporin autopeptidase
PF12110   Nuclear protein 96

Gene Ontology

Mouse over links to read term descriptions.
GO:0005643   nuclear pore  
GO:0017056   structural constituent of nuclear pore  
GO:0006913   nucleocytoplasmic transport  
GO:0006810   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
302 371 2pne (A) 4 76 39.00 0.0023 0.39 0.323887 0.74
504 541 2kkg (A) 57 91 57.00 0.13 0.02 0.261322 1.89
731 850 5e0q (B) 716 853 31.00 0 1 0.290121 -0.4
742 850 5hb6 (A) 860 980 26.00 0 1 0.288051 -0.55
1114 1539 4ycz (A) 1296 1658 18.00 0 0.78 -0.0846211 1.63

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. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile 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_127364)

Species Accession Gene Product
Arabidopsis thaliana AT1G59660   Nucleoporin autopeptidase
Arabidopsis thaliana AT1G80680   suppressor of auxin resistance 3
Arabidopsis thaliana AT1G10390   nucleoporin autopeptidase
Babesia bovis BBOV_III008340   hypothetical protein
Brugia malayi Bm1_45015   Nucleoporin autopeptidase family protein
Brugia malayi Bm1_16670   hypothetical protein
Brugia malayi Bm1_05685   hypothetical protein
Candida albicans CaO19.7433   likely nuclear pore complex subunit similar to S. cerevisiae NUP116 (YMR047C)
Caenorhabditis elegans CELE_ZK328.5   Protein NPP-10, isoform B
Caenorhabditis elegans CELE_F53F10.5   Protein NPP-11
Cryptosporidium hominis Chro.30276   hypothetical protein
Cryptosporidium parvum cgd3_2360   putative nucleoporin, FG-rich motifs within N-terminal region
Dictyostelium discoideum DDB_G0291390   hypothetical protein
Drosophila melanogaster Dmel_CG10198   Nucleoporin 98-96kD
Echinococcus granulosus EgrG_001034300   nuclear pore complex protein Nup98 Nup96
Entamoeba histolytica EHI_108620   hypothetical protein
Echinococcus multilocularis EmuJ_001034300   nuclear pore complex protein Nup98 Nup96
Giardia lamblia GL50803_8038   Hypothetical protein
Homo sapiens ENSG00000110713   nucleoporin 98kDa
Leishmania braziliensis LbrM.27.0470   nucleoporin, putative,serine peptidase, Clan SP, family S59, putative
Leishmania donovani LdBPK_270390.1   Nuclear pore complex protein 158
Leishmania infantum LinJ.27.0390   nucleoporin, putative,serine peptidase, Clan SP, family S59, putative
Leishmania major LmjF.27.0380   nucleoporin, putative,serine peptidase, Clan SP, family S59, putative
Leishmania mexicana LmxM.27.0380   nucleoporin, putative,serine peptidase, Clan SP, family S59, putative
Loa Loa (eye worm) LOAG_04655   hypothetical protein
Loa Loa (eye worm) LOAG_04654   hypothetical protein
Loa Loa (eye worm) LOAG_13151   hypothetical protein
Mus musculus ENSMUSG00000063550   nucleoporin 98
Neospora caninum NCLIV_027150   hypothetical protein
Oryza sativa 4351598   Os12g0166000
Oryza sativa 4331780   Os03g0172000
Oryza sativa 4351597   Os12g0165900
Onchocerca volvulus OVOC13487  
Onchocerca volvulus OVOC7920  
Plasmodium berghei PBANKA_0416300   nucleoporin NUP100/NSP100, putative
Plasmodium falciparum PF3D7_0905100   nucleoporin NUP100/NSP100, putative
Plasmodium knowlesi PKNH_0702800   nucleoporin NUP100/NSP100, putative
Plasmodium vivax PVX_098700   nucleoporin NUP100/NSP100, putative
Plasmodium yoelii PY00064   nucleoporin nup100/nsp100
Saccharomyces cerevisiae YMR047C   Nup116p
Saccharomyces cerevisiae YKL068W   Nup100p
Schistosoma japonicum Sjp_0085990   Nuclear pore complex protein Nup98-Nup96 precursor [Contains: Nuclear pore complex protein Nup98, putative
Schistosoma mansoni Smp_027900   nuclear pore complex protein nup98
Schistosoma mansoni Smp_027890   nucleoporin 145 (S59 family)
Schmidtea mediterranea mk4.001722.03   Nuclear pore complex protein Nup98-Nup96
Schmidtea mediterranea mk4.025814.00  
Schmidtea mediterranea mk4.015867.00   Nuclear pore complex protein Nup98-Nup96
Schmidtea mediterranea mk4.008715.01  
Trypanosoma brucei gambiense Tbg972.11.1040   nucleoporin, putative2,serine peptidase, Clan SP, family S59, putative
Trypanosoma brucei Tb927.11.980   Nucleoporin NUP158
Trypanosoma cruzi TcCLB.506925.440   serine peptidase, Clan SP, family S59, putative
Toxoplasma gondii TGME49_259640   nucleoporin autopeptidase
Theileria parva TP02_0318   hypothetical protein
Theileria parva TP04_0735   hypothetical protein
Trichomonas vaginalis TVAG_417960   conserved hypothetical protein

Essentiality

LmjF.27.0380 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.03.0140 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.03.0140 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.03.0140 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.03.0140 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_ZK328.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_ZK328.5 Caenorhabditis elegans larval arrest wormbase
CELE_ZK328.5 Caenorhabditis elegans larval lethal wormbase
CELE_ZK328.5 Caenorhabditis elegans sterile wormbase
CELE_F53F10.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_F53F10.5 Caenorhabditis elegans larval arrest wormbase
CELE_F53F10.5 Caenorhabditis elegans larval lethal wormbase
CELE_F53F10.5 Caenorhabditis elegans slow growth wormbase
YMR047C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0416300 Plasmodium berghei Essential plasmo
TGME49_259640 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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.
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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

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.27.0380 (Leishmania major), nucleoporin, putative,serine peptidase, Clan SP, family S59, putative
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