Detailed view for LmjF.36.6840

Basic information

TDR Targets ID: 23891
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.8323 | Length (AA): 350 | MW (Da): 38011 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 3

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

PF10507   Transmembrane protein 65

Gene Ontology

Mouse over links to read term descriptions.
GO:0005509   calcium ion binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 9 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
185 337 1bjf (A) 5 171 7.00 0.000037 0.01 0.44 -0.36
285 342 1bod () 10 73 19.00 0.000097 1 0.53 -1.54
296 342 1qx2 (A) 23 73 21.00 0.000062 0.94 0.56 -2.2
274 340 5d43 (A) 26 94 18.00 0.00000011 0.95 0.648029 -2.11
277 349 1k94 (A) 120 192 21.00 0 0.94 0.708071 -2.22
278 337 4by5 (A) 98 170 18.00 0.0087 0.69 0.486029 -1.75
280 336 2lvv (A) 134 193 33.00 0.4 0.73 0.477457 -0.41
284 349 5jjg (A) 98 165 29.00 0.0052 0.99 0.698171 -1.6
285 338 2nco (A) 137 199 26.00 0.27 1 0.487886 -1.43

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_130655)

Species Accession Gene Product
Brugia malayi Bm1_20695   4930438D12Rik protein
Caenorhabditis elegans CELE_C33H5.19   Protein TAG-321
Drosophila melanogaster Dmel_CG17715   CG17715 gene product from transcript CG17715-RG
Echinococcus granulosus EgrG_000426200   transmembrane protein 65
Echinococcus multilocularis EmuJ_000426200   transmembrane protein 65
Homo sapiens 157378   transmembrane protein 65
Leishmania braziliensis LbrM.35.7200   hypothetical protein, conserved
Leishmania donovani LdBPK_367160.1   Protein of unknown function (DUF2453), putative
Leishmania infantum LinJ.36.7160   hypothetical protein, conserved
Leishmania major LmjF.36.6840   hypothetical protein, conserved
Leishmania mexicana LmxM.36.6840   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_03727   hypothetical protein
Mus musculus ENSMUSG00000062373   transmembrane protein 65
Neospora caninum NCLIV_000770   GA25361, related
Plasmodium berghei PBANKA_0903400   conserved protein, unknown function
Plasmodium falciparum PF3D7_1145600   conserved protein, unknown function
Plasmodium knowlesi PKNH_0943500   conserved protein, unknown function
Plasmodium yoelii PY07272   GAF domain protein
Plasmodium yoelii PY06545   Unknown-related
Schistosoma japonicum Sjp_0305660   Transmembrane protein 65, putative
Schistosoma mansoni Smp_045930   hypothetical protein
Schmidtea mediterranea mk4.031799.00  
Schmidtea mediterranea mk4.004020.00  
Trypanosoma brucei gambiense Tbg972.10.9920   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.8110   Protein of unknown function (DUF2453), putative
Trypanosoma congolense TcIL3000_10_6980   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506247.130   Protein of unknown function (DUF2453), putative

Essentiality

LmjF.36.6840 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.8110 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.8110 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.8110 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.8110 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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.
  • 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.

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

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Gene identifier LmjF.36.6840 (Leishmania major), hypothetical protein, conserved
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