Detailed view for LmjF.32.3210

Basic information

TDR Targets ID: 27248
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.6124 | Length (AA): 218 | MW (Da): 24261 | 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

PF08477   Ras of Complex, Roc, domain of DAPkinase

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 8 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
3 213 2bcg (Y) 6 185 22.00 0 0.79 1.13 -0.52
5 199 2ffq (A) 13 176 17.00 0 1 0.92 -0.8
6 213 1vg8 (A) 1009 1189 22.00 0 1 1.06 -0.45
3 91 3doe (A) 14 102 16.00 0 0.02 0.539457 -0.03
5 109 4v0k (A) 17 99 37.00 0.088 0.11 0.255751 1
5 198 1x3s (A) 8 170 18.00 0 0.94 0.992108 -0.52
7 205 3bfk (B) 13 181 26.00 0.064 0.97 1.08194 -0.09
7 197 3rwo (B) 15 174 26.00 0.37 0.98 1.05225 -0.15

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 60-80% 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_131908)

Species Accession Gene Product
Brugia malayi Bm1_34060   RAB, member of RAS oncogene family-like 5
Caenorhabditis elegans CELE_T28F3.6   Protein IFTA-2
Echinococcus multilocularis EmuJ_001054350   ras-related protein rab-5
Giardia lamblia GL50803_8944   Hypothetical protein
Homo sapiens ENSG00000128581   intraflagellar transport 22
Leishmania braziliensis LbrM.32.3500   hypothetical protein, conserved
Leishmania donovani LdBPK_323410.1   Miro-like protein, putative
Leishmania infantum LinJ.32.3410   hypothetical protein, conserved
Leishmania major LmjF.32.3210   hypothetical protein, conserved
Leishmania mexicana LmxM.31.3210   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_12733   hypothetical protein
Mus musculus ENSMUSG00000007987   intraflagellar transport 22
Schistosoma japonicum Sjp_0208370   ko:K07935 Rab-like protein 5, putative
Schistosoma mansoni Smp_174780   hypothetical protein
Schmidtea mediterranea mk4.019562.00  
Trypanosoma brucei gambiense Tbg972.11.18990   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.16830   Rab-like 5, small G protein
Trypanosoma congolense TcIL3000.11.16770   Rab-like 5, small G protein
Trypanosoma cruzi TcCLB.508713.20   Rab-like 5, small G protein
Trypanosoma cruzi TcCLB.511535.20   Rab-like 5, small G protein
Trichomonas vaginalis TVAG_480610   conserved hypothetical protein

Essentiality

LmjF.32.3210 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.8590 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.8590 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.8590 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.8590 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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

  • Lmaj005228AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Lmaj005228; Recombinant protein: full-length; Source: L major; hypothetical protein, conserved ;

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.32.3210 (Leishmania major), hypothetical protein, conserved
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