Detailed view for LmjF.29.2810

Basic information

TDR Targets ID: 26228
Leishmania major, ribonuclease inhibitor-like protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.3933 | Length (AA): 738 | MW (Da): 81027 | Paralog Number: 1

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

PF13516   Leucine Rich repeat

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 10 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
64 464 1z7x (W) 4 426 21.00 0.0000000059 1 0.78 -0.54
226 561 2bnh () 21 346 28.00 0 1 0.82 -0.58
166 546 4k17 (A) 210 602 25.00 0.00000012 1 0.70996 0.37
246 305 4r5d (A) 380 440 38.00 0 0.85 0.572701 -0.92
357 738 3oja (A) 107 478 25.00 0.24 0.99 0.543315 1.14
539 716 4uos (A) 9 182 14.00 0 0.21 0.524592 -1.94
568 738 1c1g (A) 15 162 30.00 0 0.01 0.283107 0.41
572 721 4uxv (A) 387 554 25.00 0.21 0.55 0.422952 -0.54
591 697 1ij5 (A) 37 132 38.00 0.094 0.14 0.355686 0.14
667 726 5djn (A) 371 429 24.00 0.87 0.02 0.401001 -1.37

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 metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile amastigotes. 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_128963)

Species Accession Gene Product
Arabidopsis thaliana AT1G10510   protein EMB2004
Dictyostelium discoideum DDB_G0278635   leucine-rich repeat-containing protein
Dictyostelium discoideum DDB_G0290485   hypothetical protein
Homo sapiens ENSG00000167984   NLR family, CARD domain containing 3
Leishmania braziliensis LbrM.26.0520   hypothetical protein, conserved
Leishmania braziliensis LbrM.29.2870   ribonuclease inhibitor-like protein
Leishmania donovani LdBPK_260490.1   hypothetical protein, conserved
Leishmania donovani LdBPK_292920.1   ribonuclease inhibitor-like protein
Leishmania infantum LinJ.26.0490   hypothetical protein, conserved
Leishmania infantum LinJ.29.2920   ribonuclease inhibitor-like protein
Leishmania major LmjF.29.2810   ribonuclease inhibitor-like protein
Leishmania major LmjF.26.0500   hypothetical protein, conserved
Leishmania mexicana LmxM.26.0500   hypothetical protein, conserved
Leishmania mexicana LmxM.08_29.2810  
Mus musculus 268857   NLR family, CARD domain containing 3
Oryza sativa 4340606   Os06g0237400
Schmidtea mediterranea mk4.005930.02  
Trypanosoma brucei gambiense Tbg972.7.1430   hypothetical protein, conserved,leucine-rich repeat protein (LRRP), putative
Trypanosoma brucei gambiense Tbg972.3.3030   hypothetical protein, conserved
Trypanosoma brucei Tb927.3.2950   ribonuclease inhibitor- like protein
Trypanosoma brucei Tb927.7.1430   leucine-rich repeat protein (LRRP), putative
Trypanosoma congolense TcIL3000_0_29380   leucine-rich repeat protein (LRRP), putative
Trypanosoma congolense TcIL3000_3_1860   ribonuclease inhibitor- like protein
Trypanosoma cruzi TcCLB.503579.20   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.507517.10   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.506693.50   ribonuclease inhibitor-like protein, putative
Trichomonas vaginalis TVAG_047040   card15, putative
Trichomonas vaginalis TVAG_215100   leucine rich repeat-containing protein, putative
Trichomonas vaginalis TVAG_204150   leucine rich repeat-containing protein, putative
Trichomonas vaginalis TVAG_472630   leucine rich repeat-containing protein, putative
Trichomonas vaginalis TVAG_296710   nalp 13
Trichomonas vaginalis TVAG_439720   leucine rich repeat and nacht domain-containing protein, putative
Trichomonas vaginalis TVAG_476800   leucine rich repeat-containing protein, putative
Trichomonas vaginalis TVAG_349380   nalp 4
Trichomonas vaginalis TVAG_441550   leucine rich repeat-containing protein, putative
Trichomonas vaginalis TVAG_159540   leucine rich repeat-containing protein, putative
Trichomonas vaginalis TVAG_075380   leucine rich repeat-containing protein, putative
Trichomonas vaginalis TVAG_056420   leucine rich repeat-containing protein, putative

Essentiality

LmjF.29.2810 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.2950 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.2950 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.3.2950 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.2950 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.7.1430 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.1430 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.7.1430 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.1430 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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.

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.

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User comments

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Gene identifier LmjF.29.2810 (Leishmania major), ribonuclease inhibitor-like protein
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