Detailed view for LmjF.02.0140

Basic information

TDR Targets ID: 21329
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.6998 | Length (AA): 895 | MW (Da): 93859 | 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

PF12796   Ankyrin repeats (3 copies)
PF13920   Zinc finger, C3HC4 type (RING finger)

Gene Ontology

Mouse over links to read term descriptions.
GO:0008270   zinc ion binding  
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
5 162 2f8y (A) 1936 2108 20.00 0.000000000025 1 0.33 -0.45
51 140 2b0o (E) 590 679 27.00 0.000014 1 0.52 -1.43
655 692 1xb0 (A) 311 345 11.00 0.000017 0.01 0.17 -1.26
1 140 2b0o (G) 550 679 19.00 0 1 0.401625 -1.09
45 137 1ihb (A) 67 158 32.00 0.37 1 0.586511 -1.2
60 135 4zfh (A) 60 132 38.00 0.18 1 0.659516 -1.42
73 142 5aqa (A) 97 172 40.00 0.16 1 0.552812 -0.92
824 892 2kiz (A) 2 66 22.00 0.43 0.7 0.181095 0.44
827 895 2yho (A) 375 433 36.00 0.00025 0.95 0.261095 0.59
834 885 2ecm (A) 3 51 39.00 0.5 0.37 0.0507006 0.87

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_145748)

Species Accession Gene Product
Leishmania braziliensis LbrM.02.0150   hypothetical protein, conserved
Leishmania donovani LdBPK_020120.1   Ankyrin repeats (3 copies)/Zinc finger, C3HC4 type (RING finger), putative
Leishmania infantum LinJ.02.0120   hypothetical protein, conserved
Leishmania major LmjF.02.0140   hypothetical protein, conserved
Leishmania mexicana LmxM.02.0140   hypothetical protein, conserved
Trypanosoma brucei gambiense Tbg.972.2.900   hypothetical protein, conserved
Trypanosoma brucei Tb927.2.2360   Ankyrin repeats (3 copies)/Zinc finger, C3HC4 type (RING finger), putative
Trypanosoma congolense TcIL3000_0_19760   Ankyrin repeats (3 copies)/Zinc finger, C3HC4 type (RING finger) containing protein, putative
Trypanosoma cruzi TcCLB.509145.10   Ankyrin repeats (3 copies)/Zinc finger, C3HC4 type (RING finger), putative
Trypanosoma cruzi TcCLB.508741.380   Ankyrin repeats (3 copies)/Zinc finger, C3HC4 type (RING finger), putative

Essentiality

LmjF.02.0140 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.2.2360 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.2.2360 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.2.2360 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.2.2360 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • 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
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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

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.02.0140 (Leishmania major), hypothetical protein, conserved
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