Detailed view for PVX_114745

Basic information

TDR Targets ID: 270565
Plasmodium vivax, histone-lysine N-methyltransferase, putative
Source Database / ID:  PlasmoDB 

pI: 8.7547 | Length (AA): 517 | MW (Da): 60707 | Paralog Number: 0

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

Druggability Group : DG5

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

PF00856   SET domain
PF01753   MYND finger

Gene Ontology

Mouse over links to read term descriptions.
GO:0008270   zinc ion binding  
GO:0005515   protein binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 5 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
67 107 2d8q (A) 16 54 31.00 0.000054 0.83 0.41 -0.06
422 517 1tjc (A) 147 233 9.00 0 0.22 0.32 -1.61
68 284 5ccl (A) 48 267 28.00 0 1 0.590629 1.03
68 107 2yqq (A) 14 46 45.00 1 0.96 0.311269 0.96
420 515 4wuy (A) 338 433 18.00 0.13 1 0.547187 -1.28

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
Mid 40-60% percentile intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 hs, intraerythrocytic - 24 hs, intraerythrocytic - 30 hs, intraerythrocytic - 36 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intraerythrocytic - 40 hs, intraerythrocytic - 48 hs. Zhu L
Show/Hide expression data references
  • Zhu L New insights into the Plasmodium vivax transcriptome using RNA-Seq.

Orthologs

Ortholog group members (OG5_128877)

Species Accession Gene Product
Arabidopsis thaliana AT2G17900   SET domain group protein 37
Caenorhabditis elegans CELE_T22A3.4   Protein SET-18, isoform B
Caenorhabditis elegans CELE_R06F6.4   Protein SET-14
Caenorhabditis elegans CELE_F33H2.7   Protein SET-10
Cryptosporidium hominis Chro.70568   hypothetical protein
Cryptosporidium parvum cgd7_5090   SET domain protein with MYND insert (Skm/BOP family)
Dictyostelium discoideum DDB_G0290183   hypothetical protein
Dictyostelium discoideum DDB_G0277331   SET domain-containing protein
Drosophila melanogaster Dmel_CG13761   Buzidau
Echinococcus granulosus EgrG_000199000   SET and MYND domain containing protein 3
Echinococcus multilocularis EmuJ_000199000   SET and MYND domain containing protein 3
Homo sapiens ENSG00000143499   SET and MYND domain containing 2
Homo sapiens ENSG00000185420   SET and MYND domain containing 3
Loa Loa (eye worm) LOAG_15621   hypothetical protein
Mus musculus 69726   SET and MYND domain containing 3
Mus musculus ENSMUSG00000026603   SET and MYND domain containing 2
Oryza sativa 9266585   Os03g0704200
Plasmodium berghei PBANKA_1131800   histone-lysine N-methyltransferase, putative
Plasmodium falciparum PF3D7_1355300   histone-lysine N-methyltransferase, putative
Plasmodium knowlesi PKNH_1116600   histone-lysine N-methyltransferase, putative
Plasmodium vivax PVX_114745   histone-lysine N-methyltransferase, putative
Plasmodium yoelii PY04885   Homo sapiens HSKM-B
Schmidtea mediterranea mk4.000261.22  
Schmidtea mediterranea mk4.000261.32  

Essentiality

PVX_114745 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_1131800 Plasmodium berghei Slow plasmo
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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

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
Species Known druggable target Linked compounds Reference
Homo sapiens SET and MYND domain containing 2 Compounds References
Homo sapiens SET and MYND domain containing 3 Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.11 1 0.5
0.0634 0.4306 0.5
0.0087 1 0.5
0.0808 1 0.5
0.0087 1 0.5
0.0087 1 0.5
0.11 1 0.5
0.0999 1 0.5
0.0087 1 0.5
0.1112 1 1
0.0087 1 0.5
0.0396 1 1
0.0634 0.4306 0.5
0.0087 1 0.5
0.0216 0.2606 1
0.0087 1 0.5
0.0087 1 0.5
0.0384 0.2701 1
0.0087 1 0.5
0.0453 1 1
0.0583 1 0.5
0.0225 0.329 0.4517
0.0284 1 0.5
0.0087 1 0.5
0.1036 1 0.5
0.0384 1 1
0.0634 0.4306 0.5
0.0634 0.4306 0.5
0.0618 1 1
0.0087 1 0.5
0.1096 1 0.5
0.0311 0.4497 1
0.0087 1 0.5
0.06 0.3105 1
0.0454 0.5817 0.5
0.0839 1 0.5
0.1099 1 1
0.0634 0.4306 0.5
0.0218 1 1
0.0087 1 0.5
0.0087 1 0.5
0.0234 1 0.5
0.0087 1 0.5
0.0634 0.4306 0.5
0.1163 0.7761 1
0.0087 1 0.5
0.1154 1 0.5
0.0216 0.2606 1
0.1163 0.7761 1
0.0625 1 0.5
0.0087 1 0.5
0.0946 1 0.5
0.0087 1 0.5
0.1112 1 1
0.0304 1 0.5
0.0634 0.4306 0.5
0.0087 1 0.5
0.0087 1 0.5
0.0087 1 0.5
0.0087 1 0.5
0.0087 1 0.5
0.1112 1 1
0.0634 0.4306 0.5
0.0983 1 0.5
0.1146 1 0.5
0.0624 1 0.5
0.0895 1 0.5
0.0384 0.2701 1

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 PVX_114745 (Plasmodium vivax), histone-lysine N-methyltransferase, putative
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