Detailed view for LmjF.25.1580

Basic information

TDR Targets ID: 21338
Leishmania major, casein kinase I, putative

Source Database / ID:  TriTrypDB  GeneDB

pI: 9.4705 | Length (AA): 505 | MW (Da): 57708 | 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

PF00069   Protein kinase domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005524   ATP binding  
GO:0004674   protein serine/threonine kinase activity  
GO:0004672   protein kinase activity  
GO:0006468   protein amino acid phosphorylation  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 6 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
1 422 2etr (A) 56 404 18.00 0 1 0.69 0.54
19 341 1csn () 9 288 48.00 0 1 1.11 -0.67
103 333 1u46 (A) 169 387 22.00 0 1 0.73 -0.69
16 428 5czo (A) 2 383 43.00 0 1 1.18772 -0.16
17 343 4kb8 (A) 4 285 56.00 0 1 1.02742 -0.16
110 334 4hzr (A) 176 388 20.00 0.00000000023 1 0.722445 -0.63

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 metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Upper 60-80% 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_154588)

Species Accession Gene Product
Leishmania braziliensis LbrM.25.2430   casein kinase I, putative
Leishmania donovani LdBPK_251640.1   casein kinase I, putative
Leishmania infantum LinJ.25.1640   casein kinase I, putative
Leishmania major LmjF.25.1580   casein kinase I, putative
Leishmania mexicana LmxM.25.1580   casein kinase I, putative
Trypanosoma brucei gambiense Tbg972.3.1460   casein kinase 1, putative
Trypanosoma brucei Tb927.3.1630   casein kinase 1, putative
Trypanosoma congolense TcIL3000_3_730   casein kinase 1, putative
Trypanosoma cruzi TcCLB.510089.170   casein kinase I, putative
Trypanosoma cruzi TcCLB.510421.180   casein kinase I, putative

Essentiality

LmjF.25.1580 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.1630 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.1630 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.1630 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.1630 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
catalytic activity (GO:0003824) decreased (PATO:0000468) in vitro (MI:0492) inferred from specific protein inhibition (ECO:0000020) Leishmania major No drug identifiers listed for this gene.
Annotator: crowther@u.washington.edu. Comment: Drug: 188343-77-3; Drug: 191030-70-3; Drug: 762172-81-6; Drug: 480453-85-8. chemical inhibitors reduced casein kinase activity and growth of promastigotes. References: 16890941
growth (GO:0040007) decreased time (PATO:0000716) single cell organism (CARO:0000064) promastigote (BTO:0001124) inferred from bioassay (ECO:0000094) Leishmania major No drug identifiers listed for this gene.
Annotator: crowther@u.washington.edu. Comment: Drug: 188343-77-3; Drug: 191030-70-3; Drug: 762172-81-6; Drug: 480453-85-8. chemical inhibitors reduced casein kinase activity and growth of promastigotes. References: 16890941

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): 0.7


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
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus MAP kinase p38 alpha 360 aa 22.9% 306 aa Compounds References
Bos taurus Casein kinase I isoform alpha 325 aa 47.2% 320 aa Compounds References
Sus scrofa Casein kinase I isoform alpha 125 aa 44.3% 167 aa Compounds References

Obtained from network model

Ranking Plot


Putative Drugs List


Compound Raw Global Species
0.0007 0.5 0.5
0.0023 0.5 0.5
0.0098 0.3242 0.2614
0.0039 0.9485 0.5
0.0008 0.5 0.5
0.0092 1 0.5
0.0029 0.5 0.5
0.0011 1 0.5
0.0062 0.6935 0
0.0059 1 1
0.0027 1 0.5
0.0016 0.5 0.5
0.0067 0.5 0.5
0.0066 0.3101 0
0.0026 0.5 0.5
0.0036 0.5 0.5
0.0039 0.5 0.5
0.0061 0.6883 0.5304
0.0042 0.5 0.5
0.0018 0.5 0.5
0.0069 0.3067 1
0.0059 1 1
0.0033 0.5 0.5
0.0063 1 1
0.0004 0.5 0.5
0.0091 1 0.5
0.0081 0.5 0.5
0.0007 0.5 0.5
0.0012 0.5 0.5
0.0016 0.5 0.5
0.0033 1 1
0.0007 0.5 0.5
0.0032 0.5 0.5
0.0039 0.5 0.5
0.0037 1 0.5
0.0012 0.5 0.5
0.0012 0.5 0.5
0.0003 0.5 0.5
0.0088 0.4477 1
0.0081 1 0.5
0.0056 1 0.5
0.0093 0.8828 0
0.0032 0.5 0.5
0.0063 0.7244 0.2543
0.0059 1 1
0.0022 0.5 0.5
0.0064 0.3377 0

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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Gene identifier LmjF.25.1580 (Leishmania major), casein kinase I, putative
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