Detailed view for LmjF.24.0490

Basic information

TDR Targets ID: 22097
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.4913 | Length (AA): 1938 | MW (Da): 209094 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: N | Predicted trans-membrane segments: 1

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)
PF13855   Leucine rich repeat
PF14580   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 17 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
143 490 1o6v (A) 76 438 21.00 0 1 0.42 -0.12
242 387 1xeu (A) 42 189 30.00 0.00000076 1 0.55 -1.34
1376 1798 1o6v (A) 96 438 31.00 0.00000000003 1 0.4 -0.14
1672 1814 1dce (A) 425 565 31.00 0.000008 1 0.55 -1.02
5 81 1jvr (A) 7 79 7.00 0 0 0.0458317 -0.04
153 417 4fmz (A) 87 355 18.00 0.11 1 0.366339 -0.19
244 387 4r58 (A) 59 200 31.00 0.000000045 1 0.570303 -1.09
269 393 3zyj (A) 99 251 41.00 0.00023 0.79 0.256499 0.44
296 392 2o6r (A) 55 154 35.00 0.0058 1 0.511052 -0.74
1061 1168 5d3i (A) 35 136 33.00 0.24 1 0.393728 -0.41
1317 1787 4bsr (A) 55 471 29.00 0.0000032 1 0.339034 0.81
1317 1624 1jl5 (A) 1081 1353 30.00 0.0012 1 0.255927 0.7
1329 1416 4k5u (B) 53 142 40.00 0.0028 0.76 0.429408 0.19
1378 1502 4tzh (A) 42 171 34.00 0.0004 0.88 0.420499 -0.11
1655 1767 3v47 (A) 306 422 34.00 0.019 1 0.528308 -0.73
1664 1731 3e6j (A) 96 164 43.00 0.0017 1 0.570088 -0.28
1672 1814 1dce (A) 425 565 31.00 0.000063 1 0.541787 -0.91

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
Lower 0-20% 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_130908)

Species Accession Gene Product
Caenorhabditis elegans CELE_T05H4.3   Protein T05H4.3
Echinococcus granulosus EgrG_000740600   leucine rich repeat containing protein 9
Echinococcus multilocularis EmuJ_000740600   leucine rich repeat containing protein 9
Leishmania braziliensis LbrM.24.0500   hypothetical protein, conserved
Leishmania donovani LdBPK_240500.1   Leucine Rich repeats (2 copies)/Leucine rich repeat, putative
Leishmania infantum LinJ.24.0500   hypothetical protein, conserved
Leishmania major LmjF.24.0490   hypothetical protein, conserved
Leishmania mexicana LmxM.24.0490   hypothetical protein, conserved
Mus musculus ENSMUSG00000021090   leucine rich repeat containing 9
Neospora caninum NCLIV_026560   Cell wall surface anchor family protein, related
Oryza sativa 4329947   Os02g0609900
Plasmodium berghei PBANKA_1012500   leucine-rich repeat protein
Plasmodium falciparum PF3D7_1432400   leucine-rich repeat protein
Plasmodium knowlesi PKNH_0419000   leucine-rich repeat protein
Plasmodium yoelii PY05964   hypothetical protein
Plasmodium yoelii PY05963   Streptococcus pyogenes AMV253
Schistosoma japonicum Sjp_0013980   Leucine-rich repeat-containing protein 9, putative
Schmidtea mediterranea mk4.000030.18  
Trypanosoma brucei gambiense Tbg972.11.5860   hypothetical protein, conserved,leucine-rich repeat protein (LRRP), putative
Trypanosoma brucei Tb927.11.5190   leucine-rich repeat protein (LRRP), putative
Trypanosoma congolense TcIL3000.11.5400   leucine-rich repeat protein (LRRP), putative
Trypanosoma congolense TcIL3000_0_52890   leucine-rich repeat protein (LRRP), putative
Trypanosoma cruzi TcCLB.504131.70   hypothetical protein, conserved
Trichomonas vaginalis TVAG_050150   toll, putative
Trichomonas vaginalis TVAG_452620   leucine-rich transmembrane proteins, putative

Essentiality

LmjF.24.0490 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.2850 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.02.2850 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.02.2850 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.02.2850 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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.
  • 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.
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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.24.0490 (Leishmania major), hypothetical protein, conserved
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