Detailed view for LmjF.34.3050

Basic information

TDR Targets ID: 27409
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.305 | Length (AA): 178 | MW (Da): 19968 | Paralog Number: 1

Signal peptide: Y | GPI Anchor: N | Predicted trans-membrane segments: 1

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

PF00173   Cytochrome b5-like Heme/Steroid binding domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0020037   heme binding  

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
72 148 1x3x (A) 3 82 13.00 0 0.5 0.56 -0.96
74 168 1j03 (A) 2 99 39.00 0 1 1.07 -0.9
72 127 1x3x (A) 3 58 18.00 0.00045 0.52 0.527107 -0.6
72 171 4x8y (A) 70 174 35.00 0 1 1.0379 -0.95
74 168 1t0g (A) 11 108 39.00 0 1 1.08121 -0.97
104 163 2qr4 (B) 516 565 53.00 0.96 0.3 0.351779 1.09

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. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% 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_127142)

Species Accession Gene Product
Arabidopsis thaliana AT3G48890   membrane-associated progesterone binding protein 3
Arabidopsis thaliana AT2G24940   hypothetical protein
Arabidopsis thaliana AT5G52240   membrane steroid-binding protein 1
Brugia malayi Bm1_26935   Cytochrome b5-like Heme/Steroid binding domain containing protein
Candida albicans CaO19.489   one of three genes with similarity to S. cerevisiae putative sterol-binding protein DAP1 (YPL170W) damage response protein relat
Candida albicans CaO19.6867   PFAM Heme/Steroid binding domain
Candida albicans CaO19.8119   one of three genes with similarity to S. cerevisiae putative sterol-binding protein DAP1 (YPL170W) damage response protein relat
Caenorhabditis elegans CELE_K07E3.8   Protein VEM-1, isoform B
Dictyostelium discoideum DDB_G0282683   cytochrome b5 domain-containing protein
Drosophila melanogaster Dmel_CG9066   membrane steroid binding protein
Echinococcus granulosus EgrG_000246800   membrane associated progesterone receptor
Echinococcus multilocularis EmuJ_000246800   membrane associated progesterone receptor
Homo sapiens ENSG00000164040   progesterone receptor membrane component 2
Homo sapiens ENSG00000117691   neudesin neurotrophic factor
Leishmania braziliensis LbrM.20.2630   hypothetical protein, conserved
Leishmania donovani LdBPK_342880.1   cytochrome b5-like Heme/Steroid binding domain containing protein, putative
Leishmania donovani LdBPK_366980.1   cytochrome b5-like Heme/Steroid binding domain containing protein, putative
Leishmania infantum LinJ.34.2880   hypothetical protein, conserved
Leishmania infantum LinJ.36.6980   hypothetical protein, conserved
Leishmania major LmjF.34.3050   hypothetical protein, conserved
Leishmania major LmjF.36.6670   hypothetical protein, conserved
Leishmania mexicana LmxM.33.3050   hypothetical protein, conserved
Leishmania mexicana LmxM.36.6670   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_06659   hypothetical protein
Mus musculus ENSMUSG00000037499   neuron derived neurotrophic factor
Mus musculus ENSMUSG00000006373   progesterone receptor membrane component 1
Mus musculus ENSMUSG00000049940   progesterone receptor membrane component 2
Neospora caninum NCLIV_068950   hypothetical protein
Oryza sativa 4332675   Os03g0321000
Oryza sativa 4330110   Os02g0640300
Oryza sativa 4349046   Os10g0502600
Oryza sativa 4330990   Os02g0793700
Oryza sativa 4349045   Os10g0502500
Saccharomyces cerevisiae YPL170W   Dap1p
Schistosoma japonicum Sjp_0071530   Membrane-associated progesterone receptor component 2, putative
Schistosoma mansoni Smp_093700   membrane associated progesterone receptor
Schmidtea mediterranea mk4.001268.03  
Schmidtea mediterranea mk4.000478.00   Putative membrane associated progesterone receptor
Trypanosoma brucei gambiense Tbg972.4.1580   hypothetical protein, conserved
Trypanosoma brucei Tb927.4.1670   cytochrome b5-like Heme/Steroid binding domain containing protein, putative
Trypanosoma congolense TcIL3000_4_1270   cytochrome b5-like Heme/Steroid binding domain containing protein, putative
Trypanosoma cruzi TcCLB.506247.310   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.504057.145   Present in the outer mitochondrial membrane proteome 29
Toxoplasma gondii TGME49_276990   cytochrome b5 family heme/steroid binding domain-containing protein

Essentiality

LmjF.34.3050 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.1670 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.1670 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.1670 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.1670 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_276990 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.
  • 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
  • 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.

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.34.3050 (Leishmania major), hypothetical protein, conserved
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