Detailed view for LmjF.36.1970

Basic information

TDR Targets ID: 22922
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.7161 | Length (AA): 297 | MW (Da): 33112 | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0070988   GO:demethylation  

GO:0016491   oxidoreductase activity  
GO:0055114   oxidation reduction  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
96 277 2iuw (A) 87 279 21.00 0 0.43 0.75 -0.51
97 278 4npl (A) 18 219 17.00 0 0.76 0.768695 -0.41
151 258 3tht (A) 175 294 31.00 0.000000069 0.34 0.480036 1.03

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
Mid 40-60% percentile amastigotes. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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_131138)

Species Accession Gene Product
Brugia malayi Bm1_16965   LD42289p
Caenorhabditis elegans CELE_F09F7.7   Protein F09F7.7, isoform B
Drosophila melanogaster Dmel_CG4036   CG4036 gene product from transcript CG4036-RB
Homo sapiens ENSG00000160993   alkB, alkylation repair homolog 4 (E. coli)
Leishmania braziliensis LbrM.35.2190   hypothetical protein, conserved
Leishmania donovani LdBPK_362080.1   2OG-Fe(II) oxygenase superfamily, putative
Leishmania infantum LinJ.36.2080   hypothetical protein, conserved
Leishmania major LmjF.36.1970   hypothetical protein, conserved
Leishmania mexicana LmxM.36.1970   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_03388   hypothetical protein
Loa Loa (eye worm) LOAG_07565   hypothetical protein
Mus musculus ENSMUSG00000039754   alkB, alkylation repair homolog 4 (E. coli)
Neospora caninum NCLIV_063160   hypothetical protein, conserved
Onchocerca volvulus OVOC9011  
Schistosoma japonicum Sjp_0215190   ko:K10766 alkylated DNA repair protein alkB homolog 4, putative
Schistosoma mansoni Smp_119120   oxygenase-related
Schistosoma mansoni Smp_117400   hypothetical protein
Schistosoma mansoni Smp_081600   hypothetical protein
Schmidtea mediterranea mk4.001336.00   Alpha ketoglutarate dependent dioxygenase ABH4
Trypanosoma brucei gambiense Tbg972.10.7900   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.6450   2OG-Fe(II) oxygenase superfamily, putative
Trypanosoma congolense TcIL3000_10_5510   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.510187.490   2OG-Fe(II) oxygenase superfamily, putative
Toxoplasma gondii TGME49_246140   hypothetical protein

Essentiality

LmjF.36.1970 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.6450 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.6450 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.6450 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.6450 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F09F7.7 Caenorhabditis elegans embryonic lethal wormbase
TGME49_246140 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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.36.1970 (Leishmania major), hypothetical protein, conserved
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