Detailed view for LmjF.32.3010

Basic information

TDR Targets ID: 26558
Leishmania major, hypothetical protein, conserved,leucine-rich repeat protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.8683 | Length (AA): 875 | MW (Da): 96510 | 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

PF12799   Leucine Rich repeats (2 copies)
PF16561   Glycogen recognition site of AMP-activated protein kinase

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 11 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
2 274 1h6u (A) 61 332 11.00 0 1 0.27 -0.22
60 164 1h6u (A) 97 200 31.00 0.0000018 1 0.73 -2.11
1 190 4r5c (A) 89 284 22.00 0.063 1 0.434643 -0.41
15 120 3e6j (A) 41 158 33.00 0.15 1 0.457543 -0.69
23 200 1m9s (A) 105 279 27.00 0.000000029 1 0.559829 -0.19
60 164 4fho (A) 97 200 32.00 0.0000013 1 0.6664 -1.39
78 132 4cnm (A) 228 289 40.00 0.21 1 0.428257 0.02
111 181 2ft3 (A) 246 325 30.00 0 0.85 0.301143 -0.48
285 393 2qlv (B) 161 345 26.00 0 0.98 0.279571 0.37
552 645 4dix (A) 285 373 28.00 0 0.58 0.312429 -0.3
738 836 2yrl (A) 8 101 13.00 0.7 0.05 0.159643 -0.35

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. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Mid 40-60% 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_137075)

Species Accession Gene Product
Arabidopsis thaliana AT2G34680   protein AUXIN-INDUCED IN ROOT CULTURES 9
Leishmania braziliensis LbrM.32.3300   hypothetical protein, conserved,leucine-rich repeat protein, putative
Leishmania donovani LdBPK_323200.1   hypothetical protein, conserved
Leishmania infantum LinJ.32.3200   hypothetical protein, conserved,leucine-rich repeat protein, putative
Leishmania major LmjF.32.3010   hypothetical protein, conserved,leucine-rich repeat protein, putative
Leishmania mexicana LmxM.31.3010   hypothetical protein, conserved,leucine-rich repeat protein, putative
Oryza sativa 4342403   Os07g0148800
Trypanosoma brucei gambiense Tbg972.11.19190   hypothetical protein, conserved,leucine-rich repeat protein (LRRP), putative
Trypanosoma brucei Tb927.11.17000   AIR9-like protein
Trypanosoma brucei Tb11.v5.0404   hypothetical protein, conserved
Trypanosoma congolense TcIL3000.11.16920   leucine-rich repeat protein (LRRP), putative
Trypanosoma cruzi TcCLB.511539.9   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508707.310   leucine rich repeat protein, putative
Trypanosoma cruzi TcCLB.511537.69   hypothetical protein, conserved
Trichomonas vaginalis TVAG_483820   conserved hypothetical protein
Trichomonas vaginalis TVAG_053610   conserved hypothetical protein
Trichomonas vaginalis TVAG_312690   conserved hypothetical protein
Trichomonas vaginalis TVAG_474790   conserved hypothetical protein
Trichomonas vaginalis TVAG_457770   protein phosphatases pp1 regulatory subunit, putative

Essentiality

LmjF.32.3010 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.8770 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.8770 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.8770 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.01.8770 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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.32.3010 (Leishmania major), hypothetical protein, conserved,leucine-rich repeat protein, putative
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