Detailed view for LmjF.21.1240

Basic information

TDR Targets ID: 26841
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.0395 | Length (AA): 1262 | MW (Da): 138996 | 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

PF00400   WD domain, G-beta 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
41 381 1r5m (A) 158 532 15.00 0.000024 1 0.39 0.08
79 385 1got (B) 47 340 18.00 0 1 0.46 -0.87
743 1100 1hci (A) 277 706 18.00 0.000092 0.95 0.19 0.89
3 67 1erj (A) 494 554 18.00 0.22 0.02 0.175106 -0.93
8 72 3dm0 (A) 1119 1184 11.00 0.69 0.01 0.126106 -0.55
90 401 2ovr (B) 2384 2666 29.00 0.000000000012 1 0.508527 -0.02
97 296 5kdo (B) 66 257 27.00 0.000000036 1 0.489779 -0.42
124 335 1p22 (A) 303 497 29.00 0.0000029 1 0.408287 0.09
149 333 5k19 (A) 240 558 33.00 0.25 0.16 0.0228927 1.59
170 341 4j0w (A) 145 318 26.00 0.00012 1 0.350592 -0.45
175 295 1gxr (A) 535 646 31.00 0.0011 0.53 0.34918 -0.51
192 336 3cfs (B) 250 404 28.00 0.0048 0.39 0.258197 -0.15
211 252 4u7a (A) 435 471 57.00 0.71 0.43 0.550581 -0.45
230 334 4g56 (B) 84 186 34.00 0.3 1 0.0425013 0.4
777 1107 4cem (A) 129 427 14.00 0 1 0.303082 -0.01
952 1101 3l4q (C) 443 590 17.00 0 0.94 0.248659 -0.55
1149 1246 5j0l (F) 8 122 14.00 0.57 0.01 0.306255 -1.39

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_147717)

Species Accession Gene Product
Leishmania braziliensis LbrM.21.1440   hypothetical protein, conserved
Leishmania donovani LdBPK_211480.1   Flagellum attachment zone protein 6
Leishmania infantum LinJ.21.1480   hypothetical protein, conserved
Leishmania major LmjF.21.1240   hypothetical protein, conserved
Leishmania mexicana LmxM.21.1240   hypothetical protein, conserved
Trypanosoma brucei gambiense Tbg972.10.910   hypothetical protein, conserved
Trypanosoma brucei Tb11.v5.0753   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.840   Flagellum attachment zone protein 6
Trypanosoma congolense TcIL3000_10_690   Flagellum attachment zone protein 6
Trypanosoma cruzi TcCLB.506855.190   Flagellum attachment zone protein 6
Trypanosoma cruzi TcCLB.503479.40   Flagellum attachment zone protein 6

Essentiality

LmjF.21.1240 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.840 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.840 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.840 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.840 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • 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
  • 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
  • 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.

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.21.1240 (Leishmania major), hypothetical protein, conserved
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