Detailed view for LmjF.33.0590

Basic information

TDR Targets ID: 26987
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.439 | Length (AA): 875 | MW (Da): 101257 | 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

PF08647   BRE1 E3 ubiquitin ligase

Gene Ontology

Mouse over links to read term descriptions.
GO:0035082   axoneme biogenesis  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
4 70 2i1k (A) 367 443 13.00 0.36 0.02 0.364771 -1.96
15 167 3na7 (A) 10 160 21.00 0.39 0.74 0.461657 -0.56
34 391 5lm2 (A) 13 347 15.00 0 0.86 0.325643 0.21
47 240 4f61 (I) 7 210 28.00 0.13 0.04 0.191514 1.31

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 80-100% 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_130687)

Species Accession Gene Product
Drosophila melanogaster Dmel_CG41265   lethal (2) 41Ab
Echinococcus granulosus EgrG_000586300   coiled coil domain containing protein 40
Echinococcus multilocularis EmuJ_000586300   coiled coil domain containing protein 40
Giardia lamblia GL50803_16039   Hypothetical protein
Homo sapiens ENSG00000141519   coiled-coil domain containing 40
Leishmania braziliensis LbrM.33.0620   hypothetical protein, conserved
Leishmania donovani LdBPK_330630.1   Coiled-coil domain-containing protein 40 homolog
Leishmania infantum LinJ.33.0630   hypothetical protein, conserved
Leishmania major LmjF.33.0590   hypothetical protein, conserved
Leishmania mexicana LmxM.32.0590   hypothetical protein, conserved
Mus musculus ENSMUSG00000039963   coiled-coil domain containing 40
Neospora caninum NCLIV_000020   M protein, putative
Plasmodium berghei PBANKA_0939300   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_1107600   conserved Plasmodium protein, unknown function
Plasmodium knowlesi PKNH_0905200   conserved Plasmodium protein, unknown function
Plasmodium vivax PVX_091055   hypothetical protein, conserved
Plasmodium yoelii PY03788   hypothetical protein
Schistosoma japonicum Sjp_0312510   Conserved hypothetical protein
Schistosoma japonicum Sjp_0065000   IPR009053,Prefoldin,domain-containing
Schistosoma mansoni Smp_174090   hypothetical protein
Schmidtea mediterranea mk4.000336.16   Lethal
Schmidtea mediterranea mk4.000336.15   Lethal
Trypanosoma brucei gambiense Tbg972.10.13590   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.11250   Coiled-coil domain-containing protein 40 homolog
Trypanosoma congolense TcIL3000_10_9470   Coiled-coil domain-containing protein 40 homolog
Trypanosoma cruzi TcCLB.507711.60   Coiled-coil domain-containing protein 40 homolog
Toxoplasma gondii TGME49_292935   hypothetical protein
Trichomonas vaginalis TVAG_258250   conserved hypothetical protein
Trichomonas vaginalis TVAG_347860   conserved hypothetical protein

Essentiality

LmjF.33.0590 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.11250 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.11250 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.11250 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.11250 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_292935 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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

Druggability index (range: 0 to 1): 0.1

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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier LmjF.33.0590 (Leishmania major), hypothetical protein, conserved
Title for this comment
Comment