Detailed view for LmjF.25.0200

Basic information

TDR Targets ID: 22138
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.3197 | Length (AA): 1376 | MW (Da): 151446 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

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

PF15911   WD domain, G-beta repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  
GO:0005488   binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 14 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
9 299 1erj (A) 338 708 11.00 0 1 0.43 -1.04
50 348 1k8k (C) 4 362 14.00 0 1 0.19 -0.4
978 1101 1na0 (A) 9 124 18.00 0.000002 0.08 0.18 -0.16
8 219 2iwa (A) 33 263 13.00 0 0.59 0.22657 -0.19
83 379 4zb4 (A) 183 481 12.00 0 0.73 0.259343 0.72
116 329 4x3l (A) 25 223 31.00 0.52 0.31 0.199523 1.01
121 386 1h6l (A) 36 326 14.00 0 0.7 0.171814 0.76
780 1091 3q15 (B) 5 370 10.00 0 0.34 0.171244 0.54
783 1171 4gyo (A) 8 366 15.00 0 0.99 0.339203 0.47
960 1051 5szg (A) 1843 1941 30.00 0.47 0.02 0.17286 0.9
1088 1218 2fo7 (A) 4 134 6.00 0.0073 0.01 0.141203 -0.21
1187 1284 3kd7 (A) 9 102 6.00 0.51 0.07 0.0932209 -0.31
1305 1368 2xeu (A) 6 63 24.00 0.8 0.48 0.235512 -0.37
1307 1359 2ep4 (A) 73 122 18.00 0.13 0.15 0.101517 0.36

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, 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_130019)

Species Accession Gene Product
Brugia malayi Bm1_18945   WD repeat membrane protein
Caenorhabditis elegans CELE_ZK520.3   Protein DYF-2, isoform B
Drosophila melanogaster Dmel_CG11237   Outer segment 6
Echinococcus granulosus EgrG_001016400   WD repeat containing protein 19
Echinococcus multilocularis EmuJ_001016400   WD repeat containing protein 19
Giardia lamblia GL50803_16709   WD-repeat membrane protein
Homo sapiens ENSG00000157796   WD repeat domain 19
Leishmania braziliensis LbrM.25.0200   hypothetical protein, conserved
Leishmania donovani LdBPK_250200.1   Putative intraflagellar transport protein F6
Leishmania infantum LinJ.25.0200   hypothetical protein, conserved
Leishmania major LmjF.25.0200   hypothetical protein, conserved
Leishmania mexicana LmxM.25.0200   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_02818   hypothetical protein
Mus musculus ENSMUSG00000037890   WD repeat domain 19
Neospora caninum NCLIV_011610   Wdr19 protein, related
Schistosoma japonicum Sjp_0024880   WD repeat-containing protein 19, putative
Schistosoma japonicum Sjp_0024850   WD repeat-containing protein 19, putative
Schistosoma mansoni Smp_000300   similar to WD repeat domain 19-related
Schmidtea mediterranea mk4.002164.05   DYF-2
Schmidtea mediterranea mk4.002164.02  
Schmidtea mediterranea mk4.002164.00   Oseg6
Schmidtea mediterranea mk4.002164.06  
Schmidtea mediterranea mk4.002164.01   Oseg6
Trypanosoma brucei gambiense Tbg972.11.130   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.260   Putative intraflagellar transport protein F6
Trypanosoma congolense TcIL3000.11.160   Putative intraflagellar transport protein F6
Trypanosoma cruzi TcCLB.504109.80   Putative intraflagellar transport protein F6
Toxoplasma gondii TGME49_211370   tetratricopeptide repeat-containing protein
Trichomonas vaginalis TVAG_129640   WD-repeat protein, putative
Trichomonas vaginalis TVAG_172840   WD-repeat protein, putative
Trichomonas vaginalis TVAG_026060   WD-repeat protein, putative

Essentiality

LmjF.25.0200 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.03.0880 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.03.0880 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.03.0880 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.03.0880 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_ZK520.3 Caenorhabditis elegans slow growth wormbase
TGME49_211370 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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

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.25.0200 (Leishmania major), hypothetical protein, conserved
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