Detailed view for LmjF.21.1170

Basic information

TDR Targets ID: 29219
Leishmania major, surface antigen-like protein
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.3853 | Length (AA): 456 | MW (Da): 50097 | Paralog Number: 0

Signal peptide: Y | 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

PF00560   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 13 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
125 375 1ogq (A) 51 307 29.00 0 1 0.92 -0.9
127 322 1ozn (A) 65 260 30.00 0.0000000006 1 0.91 -1.07
50 396 4z63 (A) 34 376 26.00 0 1 1.13726 -0.67
122 228 4q3i (A) 77 182 38.00 0.000000000006 1 0.878949 -1.75
124 437 4v2e (A) 42 349 23.00 0.00018 0.98 0.918896 0.07
129 196 4u08 (A) 357 423 34.00 0 1 0.711023 -1.52
145 228 4b8c (D) 359 438 41.00 0.00039 0.98 0.729511 -0.98
267 438 3wo9 (A) 69 244 28.00 0.000000024 0.83 0.750493 -0.51
317 451 3twi (D) 54 185 23.00 0.82 0.84 0.523353 -0.54
387 456 4r58 (A) 154 220 13.00 0.013 0.01 0.242709 -0.1
151 286 5hmo (A) 809 921 36.00 0.088 0.41 0.264751 0.51
168 258 5aqm (A) 233 326 25.00 0.68 0.17 0.51398 -1.36
173 341 5cwm (A) 10 196 28.00 0.81 1 0.637849 -0.89

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 metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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_130303)

Species Accession Gene Product
Caenorhabditis elegans CELE_C07F11.1   Protein TOL-1
Drosophila melanogaster Dmel_CG8595   CG8595 gene product from transcript CG8595-RA
Drosophila melanogaster Dmel_CG6890   CG6890 gene product from transcript CG6890-RA
Drosophila melanogaster Dmel_CG7250   CG7250 gene product from transcript CG7250-RC
Drosophila melanogaster Dmel_CG8896   18 wheeler
Echinococcus granulosus EgrG_001119600   Leucine rich repeat typical subtype
Echinococcus multilocularis EmuJ_001119600   Leucine rich repeat, typical subtype
Leishmania braziliensis LbrM.21.1370   surface antigen-like protein
Leishmania major LmjF.21.1170   surface antigen-like protein
Loa Loa (eye worm) LOAG_09426   hypothetical protein
Loa Loa (eye worm) LOAG_07848   hypothetical protein
Onchocerca volvulus OVOC181  

Essentiality

LmjF.21.1170 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_C07F11.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_C07F11.1 Caenorhabditis elegans larval arrest wormbase
Show/Hide essentiality data references
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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.
  • 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.

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): 0.3

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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