Detailed view for LmjF.34.2190

Basic information

TDR Targets ID: 25622
Leishmania major, dual specificity protein phosphatase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.0664 | Length (AA): 1382 | MW (Da): 152696 | 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
PF00782   Dual specificity phosphatase, catalytic domain
PF13855   Leucine rich repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0008138   protein tyrosine/serine/threonine phosphatase activity  
GO:0005524   ATP binding  
GO:0005515   protein binding  
GO:0004725   protein tyrosine phosphatase activity  
GO:0004713   protein tyrosine kinase activity  
GO:0004674   protein serine/threonine kinase activity  
GO:0004672   protein kinase activity  
GO:0016791   phosphoric monoester hydrolase activity  
GO:0006470   protein amino acid dephosphorylation  
GO:0006468   protein amino acid phosphorylation  
GO:0016311   dephosphorylation  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 33 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
36 487 1koa () 5932 6353 15.00 0 1 0.38 0.36
111 343 2bfx (A) 137 344 29.00 0.000000000011 1 0.46 -0.73
394 706 1rdq (E) 33 333 17.00 0 1 0.44 -0.53
395 687 1uu3 (A) 73 359 19.00 0 1 0.45 -0.96
964 1139 1d0b (A) 63 237 21.00 0 1 0.38 -0.42
964 1267 1jl5 (A) 1044 1337 24.00 0 1 0.39 -0.12
993 1233 1ziw (A) 31 269 21.00 0 0.83 0.46 -0.73
997 1120 1dce (A) 446 566 30.00 0.000000093 1 0.49 -1.3
1227 1366 1zzw (A) 323 464 39.00 0 1 0.79 -2.34
1228 1367 2esb (A) 22 161 32.00 0 1 0.71 -2.05
49 343 5hvj (A) 342 610 19.00 0 1 0.188759 0.45
110 337 3sxs (A) 455 663 26.00 0.2 1 0.357478 -0.42
114 211 5ar8 (A) 38 188 38.00 0.021 0.48 0.290412 0.19
168 339 2pml (X) 148 318 25.00 0.088 0.99 0.242957 -0.09
264 353 3ka0 (A) 245 336 30.00 0.95 0.92 0.301623 -0.04
264 341 3aln (C) 289 366 36.00 0.31 0.77 0.0599399 0.54
266 343 1p4f (A) 199 276 17.00 0 0.19 0.21264 -0.21
404 722 4ynz (A) 20 334 24.00 0.0000046 1 0.356325 0.15
404 601 4x7q (A) 32 227 31.00 0.006 0.44 -0.00522938 1.23
404 556 3cok (A) 11 155 21.00 0.089 0.54 0.242209 0.23
446 666 2oib (A) 213 452 15.00 0.000000000072 0.82 0.290213 -0.48
806 1160 3wpg (A) 394 779 22.00 0.0000000012 1 0.340174 0.67
989 1316 5ixo (A) 86 428 28.00 0.0033 1 0.326837 0.81
993 1105 4u08 (A) 280 390 36.00 0.00000044 0.97 0.527266 -0.58
1009 1099 4nkh (A) 293 373 48.00 0.0012 0.98 0.410347 0.54
1015 1118 1dce (A) 461 564 33.00 0.0000067 1 0.453553 -0.38
1016 1219 4mn8 (A) 359 528 32.00 0.0068 1 0.260112 -0.02
1017 1273 4u06 (A) 46 322 28.00 0.00000016 0.98 0.365462 0.39
1192 1352 4kyq (A) 78 234 23.00 0.0000075 1 0.382798 -0.26
1224 1367 2g6z (A) 177 320 40.00 0 1 0.699497 -1.55
1226 1364 2nt2 (A) 308 446 32.00 0 1 0.644779 -1.78
1226 1371 2hcm (A) 11 156 30.00 0 1 0.649844 -1.98
1243 1345 4erc (A) 27 130 17.00 0.00035 0.8 0.31183 -0.47

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
Lower 0-20% 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_138464)

Species Accession Gene Product
Dictyostelium discoideum DDB_G0278445   leucine-rich repeat-containing protein
Dictyostelium discoideum DDB_G0269918   leucine-rich repeat-containing protein
Dictyostelium discoideum DDB_G0270688   leucine-rich repeat-containing protein
Entamoeba histolytica EHI_099820   leucine rich repeat and phosphatase domain containing protein
Leishmania braziliensis LbrM.20.1690   dual specificity protein phosphatase, putative
Leishmania donovani LdBPK_341950.1   kinatase, putative
Leishmania infantum LinJ.34.1950   dual specificity protein phosphatase, putative
Leishmania major LmjF.34.2190   dual specificity protein phosphatase, putative
Leishmania mexicana LmxM.33.2190   dual specificity protein phosphatase, putative
Trypanosoma brucei gambiense Tbg972.4.2420   dual specificity protein phosphatase, putative
Trypanosoma brucei Tb927.4.2460   kinatase, putative
Trypanosoma brucei Tb11.v5.0751   dual specificity protein phosphatase, putative
Trypanosoma congolense TcIL3000_4_2340   kinatase, putative
Trypanosoma cruzi TcCLB.510949.10   kinatase, putative
Trypanosoma cruzi TcCLB.506559.190   kinatase, putative

Essentiality

LmjF.34.2190 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.2460 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.2460 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.2460 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.2460 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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): 0.5

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
Oryctolagus cuniculus Cyclin-dependent kinase 4 189 aa 22.6% 159 aa Compounds References
Plasmodium falciparum (isolate 3D7) Cell division control protein 2 homolog 288 aa 22.5% 262 aa Compounds References
Rattus norvegicus Jak1 protein 210 aa 21.7% 180 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

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

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

31 literature references were collected for this gene.

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.34.2190 (Leishmania major), dual specificity protein phosphatase, putative
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