Detailed view for Tb927.10.14420

Basic information

TDR Targets ID: 18621
Trypanosoma brucei, Serine/threonine-protein kinase NEK16, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.8756 | Length (AA): 1506 | MW (Da): 166776 | Paralog Number: 2

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 0

Druggability Group : DG4

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:0004713   protein tyrosine kinase activity  
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 4 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
1 271 4b9d (A) 1 274 45.00 0 1 0.81325 -1.29
2 291 1tki (A) 22 318 28.00 0 1 0.57995 -0.83
3 547 5ce3 (B) 127 726 14.00 0 1 0.313105 0.46
431 545 5szg (B) 1852 1970 24.00 0.23 0.26 0.402972 -1.47

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
Upper 60-80% percentile Procyclic. Siegel TN
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Bloodstream Form. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_127026)

Species Accession Gene Product
Arabidopsis thaliana AT3G44200   serine/threonine-protein kinase Nek5
Arabidopsis thaliana AT1G54510   serine/threonine-protein kinase Nek1
Arabidopsis thaliana AT3G63280   serine/threonine-protein kinase Nek4
Arabidopsis thaliana AT3G04810   serine/threonine-protein kinase Nek2
Arabidopsis thaliana AT3G20860   NIMA-related kinase 5
Arabidopsis thaliana AT5G28290   serine/threonine-protein kinase Nek3
Babesia bovis BBOV_IV008300   protein kinase domain containing protein
Cryptosporidium hominis Chro.70419   hypothetical protein
Cryptosporidium parvum cgd7_3760   hypothetical protein
Dictyostelium discoideum DDB_G0289277   NEK family protein kinase
Dictyostelium discoideum DDB_G0280599   FHA domain-containing protein
Dictyostelium discoideum DDB_G0275241   NEK family protein kinase
Echinococcus granulosus EgrG_000909800   serine:threonine protein kinase Nek1
Entamoeba histolytica EHI_048410   serine/threonine protein kinase, putative
Echinococcus multilocularis EmuJ_000909800   serine:threonine protein kinase Nek1
Giardia lamblia GL50803_92498   Kinase, NEK
Homo sapiens 6787   NIMA-related kinase 4
Homo sapiens ENSG00000137601   NIMA-related kinase 1
Leishmania braziliensis LbrM.32.0330   protein kinase, putative,serine/threonine-protein kinase Nek1, putative
Leishmania braziliensis LbrM.21.1750   serine/threonine-protein kinase, putative
Leishmania braziliensis LbrM.14.1600   protein kinase, putative
Leishmania donovani LdBPK_211870.1   serine/threonine-protein kinase, putative
Leishmania donovani LdBPK_141510.1   protein kinase, putative
Leishmania donovani LdBPK_320270.1   Serine/threonine-protein kinase Nek1-related, putative
Leishmania infantum LinJ.32.0270   protein kinase, putative,serine/threonine-protein kinase Nek1, putative
Leishmania infantum LinJ.14.1510   protein kinase, putative
Leishmania infantum LinJ.21.1870   serine/threonine-protein kinase, putative
Leishmania major LmjF.21.1565   serine/threonine-protein kinase, putative
Leishmania major LmjF.32.0260   protein kinase, putative,serine/threonine-protein kinase Nek1, putative
Leishmania major LmjF.14.1410   protein kinase, putative
Leishmania mexicana LmxM.21.1565   serine/threonine-protein kinase, putative
Leishmania mexicana LmxM.31.0260   protein kinase, putative,serine/threonine-protein kinase Nek1, putative
Leishmania mexicana LmxM.14.1410   protein kinase, putative
Mus musculus ENSMUSG00000021918   NIMA (never in mitosis gene a)-related expressed kinase 4
Mus musculus ENSMUSG00000031644   NIMA (never in mitosis gene a)-related expressed kinase 1
Neospora caninum NCLIV_001010   hypothetical protein
Neospora caninum NCLIV_061840   hypothetical protein
Neospora caninum NCLIV_039330   NEK kinase, putative
Neospora caninum NCLIV_019170   hypothetical protein
Oryza sativa 4338922   Os05g0440800
Oryza sativa 4324792   Os01g0864700
Oryza sativa 4342542   Os07g0176600
Oryza sativa 4333522   Os03g0636800
Oryza sativa 4352734   Os12g0604700
Plasmodium berghei PBANKA_1240700   NIMA related kinase 2
Plasmodium berghei PBANKA_0616700   NIMA related kinase 4
Plasmodium falciparum PF3D7_0719200   NIMA related kinase 4
Plasmodium falciparum PF3D7_0525900   NIMA related kinase 2
Plasmodium knowlesi PKNH_1006900   NIMA related kinase 2, putative
Plasmodium knowlesi PKNH_0314600   NIMA related kinase 4, putative
Plasmodium vivax PVX_079950   serine/threonine-protein kinase Nek1, putative
Plasmodium vivax PVX_096360   serine/threonine-protein kinase NEK4, putative
Plasmodium yoelii PY02456   hypothetical protein
Plasmodium yoelii PY06724   Protein kinase domain
Schistosoma japonicum Sjp_0083420   ko:K08857 NIMA (never in mitosis gene a)-related kinase, putative
Schistosoma mansoni Smp_176970   serine/threonine protein kinase
Schmidtea mediterranea mk4.000051.15  
Schmidtea mediterranea mk4.001099.07   Serine/threonine-protein kinase Nek4
Schmidtea mediterranea mk4.001099.05   Serine/threonine-protein kinase Nek4
Schmidtea mediterranea mk4.003911.07   Serine/threonine-protein kinase flr-4
Schmidtea mediterranea mk4.018068.00  
Trypanosoma brucei gambiense Tbg972.10.17530   protein kinase, putative,serine/threonine- protein kinase nek1, putative
Trypanosoma brucei gambiense Tbg972.10.410   protein kinase, putative,serine/threonine- protein kinase nek1, putative
Trypanosoma brucei Tb927.10.460   NIMA-related protein kinase
Trypanosoma brucei Tb927.7.3580   Serine/threonine-protein kinase NEK11, putative
Trypanosoma brucei Tb927.10.14420   Serine/threonine-protein kinase NEK16, putative
Trypanosoma congolense TcIL3000_10_340   NIMA-related protein kinase
Trypanosoma congolense TcIL3000_7_2830   protein kinase, putative
Trypanosoma cruzi TcCLB.509937.220   Serine/threonine-protein kinase NEK11, putative
Trypanosoma cruzi TcCLB.511141.30   protein kinase, putative
Trypanosoma cruzi TcCLB.510407.9   Serine/threonine-protein kinase NEK11, putative
Trypanosoma cruzi TcCLB.506851.10   NIMA-related kinase, putative
Trypanosoma cruzi TcCLB.511283.280   Serine/threonine-protein kinase NEK16, putative
Toxoplasma gondii TGME49_266710   NEK kinase
Toxoplasma gondii TGME49_244620   NEK kinase
Toxoplasma gondii TGME49_218400   NEK kinase
Trichomonas vaginalis TVAG_370340   CAMK family protein kinase
Trichomonas vaginalis TVAG_210350   CAMK family protein kinase
Trichomonas vaginalis TVAG_359730   CAMK family protein kinase
Trichomonas vaginalis TVAG_432660   STE family protein kinase
Trichomonas vaginalis TVAG_048150   CAMK family protein kinase

Essentiality

Tb927.10.14420 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.460 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.460 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.460 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.460 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.10.14420 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.14420 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.14420 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.14420 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.7.3580 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.3580 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.3580 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.3580 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0616700 Plasmodium berghei Dispensable plasmo
TGME49_244620 Toxoplasma gondii Essentiality uncertain sidik
TGME49_266710 Toxoplasma gondii Essentiality uncertain sidik
TGME49_218400 Toxoplasma gondii Essentiality uncertain sidik
TGME49_244620 Toxoplasma gondii Probably non-essential sidik
TGME49_266710 Toxoplasma gondii Probably non-essential sidik
TGME49_218400 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) decreased (PATO:0000468) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) normal (PATO:0000461) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in procyclic forms . References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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
Species Known druggable target Linked compounds Reference
Homo sapiens NIMA-related kinase 1 Compounds References
Homo sapiens NIMA-related kinase 4 Compounds References
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 28.8% 160 aa Compounds References
Patiria pectinifera Cdc2 300 aa 27.5% 287 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0067 0.5 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.1429 1 1
0.0022 1 0.5
0.0081 1 0.5
0.0022 1 0.5
0.0628 0.6339 1
0.0022 1 0.5
0.0069 0.3067 1
0.0935 0.6734 0.5
0.0022 1 0.5
0.0007 0.5 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0059 1 1
0.0022 1 0.5
0.0018 0.5 0.5
0.2221 1 1
0.0026 0.5 0.5
0.0174 1 0.5
0.012 0.2898 1
0.0039 0.5 0.5
0.0022 1 0.5
0.1742 1 0.5
0.1557 1 0.5
0.0684 0.4583 1
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.1422 1 1
0.0012 0.5 0.5
0.0092 1 0.5
0.0091 1 0.5
0.0458 0.2693 0.269
0.0061 0.6883 0.5304
0.0022 1 0.5
0.0022 1 0.5
0.0081 0.5 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0023 0.5 0.5
0.0022 1 0.5
0.0008 0.5 0.5
0.0458 0.2693 0.269
0.0022 1 0.5
0.0022 1 0.5
0.1231 1 0.5
0.1633 0.266 1
0.0022 1 0.5
0.0022 1 0.5
0.0458 0.2693 0.269
0.0022 1 0.5
0.0277 0.3217 0.4295
0.0022 1 0.5
0.0022 1 0.5
0.1557 1 0.5
0.0022 1 0.5
0.0003 0.5 0.5
0.0458 0.2693 0.269
0.0022 1 0.5
0.0022 1 0.5
0.0684 0.4583 1
0.1943 1 1
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0027 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0004 0.5 0.5
0.063 0.6902 1
0.0033 0.5 0.5
0.0288 0.3139 1
0.0022 1 0.5
0.0022 1 0.5
0.1611 0.8919 0.8918
0.0022 1 0.5
0.0039 0.9485 0.5
0.0022 1 0.5
0.0789 1 0.5
0.0066 0.3101 0
0.0022 1 0.5
0.0022 1 0.5
0.0032 0.5 0.5
0.0495 0.8241 1
0.1611 0.8919 0.8918
0.0022 1 0.5
0.2073 1 1
0.0022 1 0.5
0.0012 0.5 0.5
0.0063 0.7244 0.2543
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0032 0.5 0.5
0.1748 0.5432 1
0.0022 1 0.5
0.1271 1 1
0.0022 1 0.5
0.1663 1 0.5
0.0088 0.4477 0.5
0.0022 1 0.5
0.0022 1 0.5
0.1473 1 1
0.0022 1 0.5
0.1452 0.3584 1
0.0458 0.2693 0.269
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0059 1 1
0.0684 0.4583 1
0.2053 1 0.5
0.0084 1 0.5
0.0022 1 0.5
0.138 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.1447 1 1
0.0022 1 0.5
0.0277 0.3217 0.4295
0.0022 1 0.5
0.0012 0.5 0.5
0.0007 0.5 0.5
0.0156 1 0.5
0.0935 0.6734 0.5
0.0022 1 0.5
0.0029 0.5 0.5
0.0033 1 0.5
0.0042 0.5 0.5
0.1664 1 1
0.0036 0.5 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0093 0.8828 0
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0039 0.5 0.5
0.063 0.6902 1
0.0056 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0022 0.5 0.5
0.0016 0.5 0.5
0.1919 1 1
0.0062 0.6935 0
0.0063 1 0.5
0.0022 1 0.5
0.1633 0.266 1
0.0042 1 1
0.0801 0.8161 1
0.0022 1 0.5
0.0976 1 1
0.1722 1 1
0.1292 1 1
0.0022 1 0.5
0.1447 1 1
0.0098 0.3242 0.2614
0.0022 1 0.5
0.0011 1 0.5
0.0022 1 0.5
0.0904 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.1123 1 1
0.0042 1 1
0.1748 0.5432 1
0.0059 1 1
0.0022 1 0.5
0.1611 0.8919 0.8918
0.0037 1 0.5
0.1126 1 0.5
0.0022 1 0.5
0.1059 1 1
0.0016 0.5 0.5
0.0022 1 0.5
0.0064 0.3377 0
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.1784 1 1
0.0022 1 0.5
0.0022 1 0.5
0.0022 1 0.5
0.0007 0.5 0.5

Assayability

Assay information

  • Assay for Protein Kinase C (2.7.1.37 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

No reagent availability information for this target.

Bibliographic References

150 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 Tb927.10.14420 (Trypanosoma brucei), Serine/threonine-protein kinase NEK16, putative
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