Detailed view for LmjF.36.2280

Basic information

TDR Targets ID: 23511
Leishmania major, Bardet-Biedl syndrome 4 protein homolog (BBS4-like protein 4), putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.4942 | Length (AA): 495 | MW (Da): 54542 | 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
PF13414   TPR repeat
PF13432   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 9 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
67 450 1w3b (A) 16 395 19.00 0 1 1.12 -0.83
68 454 1w3b (A) 17 398 18.00 0.0000000000031 1 1.11 -0.7
205 312 1na0 (A) 11 118 29.00 0.0000000004 1 0.83 -2.29
2 122 4a1s (A) 152 283 17.00 0.064 0.2 0.387444 -0.61
5 159 1kt1 (A) 262 413 15.00 0.59 0.41 0.509131 -0.33
59 123 4gco (A) 140 203 5.00 0.73 0.03 0.263313 -1.07
103 152 3qdn (A) 184 237 38.00 0.19 0.32 0.41261 0.13
113 430 1w3b (A) 61 375 23.00 0.000000000006 1 0.886024 0.49
205 259 2vsy (A) 25 79 25.00 0 0.94 0.467011 -0.29

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 60-80% percentile metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Mid 40-60% 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_130599)

Species Accession Gene Product
Brugia malayi Bm1_38320   TPR Domain containing protein
Caenorhabditis elegans CELE_F58A4.14   Protein BBS-4, isoform B
Drosophila melanogaster Dmel_CG13232   Bardet-Biedl syndrome 4 ortholog (H. sapiens)
Giardia lamblia GL50803_10529   Bardet-Biedl syndrome 4 protein-like protein
Homo sapiens ENSG00000140463   Bardet-Biedl syndrome 4
Leishmania braziliensis LbrM.35.2520   Bardet-Biedl syndrome 4 protein homolog (BBS4-like protein 4), putative
Leishmania donovani LdBPK_362410.1   bardet-biedl syndrome 4 protein
Leishmania infantum LinJ.36.2410   Bardet-Biedl syndrome 4 protein homolog (BBS4-like protein 4), putative
Leishmania major LmjF.36.2280   Bardet-Biedl syndrome 4 protein homolog (BBS4-like protein 4), putative
Leishmania mexicana LmxM.36.2280   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_10276   TPR Domain containing protein
Mus musculus ENSMUSG00000025235   Bardet-Biedl syndrome 4 (human)
Schistosoma japonicum Sjp_0015840   Bardet-Biedl syndrome 4 protein homolog, putative
Schistosoma japonicum Sjp_0015830   Bardet-Biedl syndrome 4 protein homolog, putative
Schistosoma japonicum Sjp_0092050   IPR013026,Tetratricopeptide region,domain-containing
Schistosoma japonicum Sjp_0015860   Bardet-Biedl syndrome 4 protein, putative
Schistosoma japonicum Sjp_0015850   Bardet-Biedl syndrome 4 protein homolog, putative
Schistosoma mansoni Smp_029480   bardet-biedl syndrome 4-like protein
Schmidtea mediterranea mk4.002776.02   Bardet-Biedl syndrome 4 protein homolog
Schmidtea mediterranea mk4.002776.00   Bardet-Biedl syndrome 4 protein homolog
Trypanosoma brucei gambiense Tbg972.10.8330   Bardet-Biedl syndrome 4 protein homolog (BBS4-like protein 4), putative
Trypanosoma brucei Tb927.10.6830   bardet-biedl syndrome 4 protein
Trypanosoma cruzi TcCLB.510187.130   bardet-biedl syndrome 4 protein
Treponema pallidum TP0460   hypothetical protein
Trichomonas vaginalis TVAG_070580   tetratricopeptide repeat protein, tpr, putative

Essentiality

LmjF.36.2280 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.6830 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.6830 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.6830 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.6830 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F58A4.14 Caenorhabditis elegans embryonic lethal wormbase
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.
  • 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
  • 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
  • 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
  • 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

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.

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User comments

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Gene identifier LmjF.36.2280 (Leishmania major), Bardet-Biedl syndrome 4 protein homolog (BBS4-like protein 4), putative
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