Detailed view for LmjF.25.2290

Basic information

TDR Targets ID: 26125
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.2704 | Length (AA): 296 | MW (Da): 32933 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG2

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

PF04757   Pex2 / Pex12 amino terminal region
PF13920   Zinc finger, C3HC4 type (RING finger)

Gene Ontology

Mouse over links to read term descriptions.
GO:0016558   protein import into peroxisome matrix  
GO:0005779   integral to peroxisomal membrane  
GO:0005778   peroxisomal membrane  
GO:0008270   zinc ion binding  
GO:0005515   protein binding  
GO:0007031   peroxisome organization and biogenesis  

Metabolic Pathways

Peroxisome (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
219 267 1chc () 6 52 32.00 0.00000016 1 0.49 0.05
221 274 2bay (A) 3 54 12.00 0 0.4 0.26 -0.65
208 274 3lrq (A) 2 67 24.00 0 0.91 0.610951 -1.16
220 272 1jm7 (A) 23 75 36.00 0 1 0.671654 -0.49
221 262 5fer (A) 13 54 48.00 0.00012 0.95 0.610692 -0.03

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_129606)

Species Accession Gene Product
Arabidopsis thaliana AT2G26350   peroxin 10
Candida albicans CaO19.5660   similar to C terminus of Pichia PEX10 Zn-binding protein involved in peroxisome biogenesis
Candida albicans CaO19.13105   similar to C terminus of Pichia PEX10 Zn-binding protein involved in peroxisome biogenesis
Dictyostelium discoideum DDB_G0282693   RING zinc finger-containing protein
Drosophila melanogaster Dmel_CG7864   Peroxin 10
Homo sapiens ENSG00000157911   peroxisomal biogenesis factor 10
Leishmania braziliensis LbrM.25.1880   hypothetical protein, conserved
Leishmania donovani LdBPK_252400.1   Pex2 / Pex12 amino terminal region/Ring finger domain containing protein, putative
Leishmania infantum LinJ.25.2400   hypothetical protein, conserved
Leishmania major LmjF.25.2290   hypothetical protein, conserved
Leishmania mexicana LmxM.25.2290   hypothetical protein, conserved
Mus musculus ENSMUSG00000029047   peroxisomal biogenesis factor 10
Neospora caninum NCLIV_064300   zinc finger (C3HC4 RING finger) protein, putative
Oryza sativa 4343871   Os07g0608800
Saccharomyces cerevisiae YDR265W   ubiquitin-protein ligase peroxin 10
Trypanosoma brucei gambiense Tbg972.3.2390   peroxisome assembly protein, putative
Trypanosoma brucei Tb927.3.2410   Peroxisome biogenesis factor 10
Trypanosoma congolense TcIL3000_3_1440   peroxisome assembly protein, putative
Trypanosoma cruzi TcCLB.508479.190   peroxisome assembly protein, putative
Toxoplasma gondii TGME49_248330   zinc finger, C3HC4 type (RING finger) domain-containing protein

Essentiality

LmjF.25.2290 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.2410 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.2410 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.2410 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.2410 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_248330 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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

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.25.2290 (Leishmania major), hypothetical protein, conserved
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