Detailed view for LmjF.36.0130

Basic information

TDR Targets ID: 28124
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.8548 | Length (AA): 367 | MW (Da): 40761 | 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

PF09409   PUB domain

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

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

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
44 76 2dkl (A) 24 56 15.00 0.29 0.48 0.303718 -0.36
80 224 5cwm (A) 57 193 32.00 0.091 0.93 0.659595 -0.21
106 154 1x8y (A) 314 362 35.00 0.22 0.04 0.735015 -2.57
126 203 3v6i (B) 35 117 40.00 0.88 0.03 0.575034 -0.59
201 340 4p0a (C) 4 131 21.00 0 0.9 0.471171 0.26
299 367 2cm0 (A) 44 108 29.00 0.0000013 0.96 0.532811 -0.39

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_128551)

Species Accession Gene Product
Arabidopsis thaliana AT5G48690   hypothetical protein
Arabidopsis thaliana AT1G04850   ubiquitin-associated (UBA)/TS-N domain-containing protein
Brugia malayi Bm1_14295   UBX domain containing protein
Caenorhabditis elegans CELE_F23C8.4   Protein UBXN-1
Cryptosporidium hominis Chro.30445   hypothetical protein
Cryptosporidium parvum cgd3_3950   PUG domain fused to an UBA domain
Dictyostelium discoideum DDB_G0276057   UBA domain-containing protein
Drosophila melanogaster Dmel_CG8209   CG8209 gene product from transcript CG8209-RA
Echinococcus granulosus EgrG_000806500   UBX domain containing protein 1
Echinococcus multilocularis EmuJ_000806500   UBX domain containing protein 1
Homo sapiens ENSG00000162191   UBX domain protein 1
Leishmania braziliensis LbrM.35.0200   hypothetical protein, conserved
Leishmania donovani LdBPK_360140.1   PUB domain containing protein, putative
Leishmania infantum LinJ.36.0140   hypothetical protein, conserved
Leishmania major LmjF.36.0130   hypothetical protein, conserved
Leishmania mexicana LmxM.36.0130   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_00225   UBX domain-containing protein
Mus musculus ENSMUSG00000071655   UBX domain protein 1
Neospora caninum NCLIV_005510   hypothetical protein
Oryza sativa 4346099   Os08g0526700
Oryza sativa 4329431   Os02g0504500
Plasmodium berghei PBANKA_0832200   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_0931400   conserved Plasmodium protein, unknown function
Plasmodium knowlesi PKNH_0730100   conserved Plasmodium protein, unknown function
Plasmodium vivax PVX_087135   hypothetical protein, conserved
Plasmodium yoelii PY07648   hypothetical protein
Schistosoma mansoni Smp_047360.1   ubx6(yeast)-related
Schistosoma mansoni Smp_047360.2   ubx6(yeast)-related
Schmidtea mediterranea mk4.002429.03  
Trypanosoma brucei gambiense Tbg972.10.5540   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.4510   PUB domain containing protein, putative
Trypanosoma brucei Tb10.v4.0041   PUB domain containing protein, putative
Trypanosoma congolense TcIL3000_10_3710   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.510963.39   PUB domain containing protein, putative
Trypanosoma cruzi TcCLB.508625.60   PUB domain containing protein, putative
Toxoplasma gondii TGME49_222110   PUB domain-containing protein
Trichomonas vaginalis TVAG_339630   thioredoxin, putative

Essentiality

LmjF.36.0130 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
TGME49_222110 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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.

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.36.0130 (Leishmania major), hypothetical protein, conserved
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