Detailed view for LmjF.35.0690

Basic information

TDR Targets ID: 27115
Leishmania major, hypothetical protein, conserved
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.3686 | Length (AA): 622 | MW (Da): 70585 | 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

PF13374   Tetratricopeptide repeat
PF13424   Tetratricopeptide 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 8 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
4 81 1na3 (A) 2 71 23.00 0.0000000014 0.52 0.32 -0.41
6 183 2fo7 (A) 1 134 22.00 0 1 0.24 0.26
451 577 1na0 (A) 10 119 25.00 0 1 0.47 -0.87
2 31 1w3b (A) 75 104 20.00 0.1 0.16 0.259632 -0.23
195 563 4i1a (B) 15 367 13.00 0 1 0.688048 0.43
338 438 3vtx (A) 52 176 34.00 0.22 0.71 0.351279 -0.15
403 529 3u3w (A) 150 274 14.00 0 0.55 0.42398 -0.83
462 532 4a1s (B) 310 384 13.00 0 0.28 0.308948 -0.97

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
Upper 80-100% percentile amastigotes. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile 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_126634)

Species Accession Gene Product
Arabidopsis thaliana AT3G27960   tetratricopeptide repeat domain-containing protein
Arabidopsis thaliana AT1G27500   tetratricopeptide repeat domain-containing protein
Arabidopsis thaliana AT4G10840   protein KINESIN LIGHT CHAIN-RELATED 1
Babesia bovis BBOV_IV009180   hypothetical protein
Brugia malayi Bm1_11290   TPR Domain containing protein
Dictyostelium discoideum DDB_G0292714   hypothetical protein
Giardia lamblia GL50803_11177   Kinesin-like protein
Leishmania braziliensis LbrM.34.0680   hypothetical protein, conserved
Leishmania donovani LdBPK_350700.1   Tetratricopeptide repeat, putative
Leishmania infantum LinJ.35.0700   hypothetical protein, conserved
Leishmania major LmjF.35.0690   hypothetical protein, conserved
Leishmania mexicana LmxM.34.0690   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_04261   TPR Domain containing protein
Mus musculus 102634091   predicted gene, 31757
Oryza sativa 4330477   Os02g0708400
Oryza sativa 4328037   Os02g0109800
Onchocerca volvulus OVOC8007   Tetratricopeptide repeat protein 28 homolog
Plasmodium berghei PBANKA_1355400   tetratricopeptide repeat protein, putative
Plasmodium falciparum PF3D7_1342300   tetratricopeptide repeat protein, putative
Plasmodium knowlesi PKNH_1259100   tetratricopeptide repeat protein, putative
Plasmodium vivax PVX_083015   hsp70 interacting protein, putative
Plasmodium yoelii PY01575   hypothetical protein
Schmidtea mediterranea mk4.002060.00  
Trypanosoma brucei gambiense Tbg972.10.4690   hypothetical protein, conserved
Trypanosoma brucei Tb927.10.3770   predicted TPR repeat protein
Trypanosoma congolense TcIL3000_10_3100   predicted TPR repeat protein
Trypanosoma cruzi TcCLB.511001.180   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.509017.40   hypothetical protein, conserved
Theileria parva TP01_0854   hypothetical protein

Essentiality

LmjF.35.0690 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.3770 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.3770 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.3770 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.3770 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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

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.

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Gene identifier LmjF.35.0690 (Leishmania major), hypothetical protein, conserved
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