Detailed view for PVX_081670

Basic information

TDR Targets ID: 267641
Plasmodium vivax, DNA (cytosine-5)-methyltransferase, putative
Source Database / ID:  PlasmoDB 

pI: 8.386 | Length (AA): 807 | MW (Da): 90723 | 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

PF00145   C-5 cytosine-specific DNA methylase

Gene Ontology

Mouse over links to read term descriptions.
GO:0008168   methyltransferase activity  
GO:0003677   DNA binding  
GO:0006306   DNA methylation  

Metabolic Pathways

Cysteine and methionine metabolism (KEGG)
Global map (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
310 381 1g55 (A) 98 168 44.00 0.0000000000047 0.93 0.73 -1.33
332 652 1g55 (A) 118 375 29.00 0.00000000063 0.88 -0.04 1.81
303 384 4h0n (A) 90 169 40.00 0.0000000032 0.97 0.588711 -0.49
310 381 1g55 (A) 98 168 44.00 0.000000000033 0.93 0.581319 0.12
742 793 4h0n (A) 280 330 29.00 0.0012 0.14 0.370136 -0.26
742 793 1g55 (A) 339 389 33.00 0.0002 0.34 0.423136 -0.19

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 - 18 hs, intraerythrocytic - 24 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 30 hs, intraerythrocytic - 36 hs, 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_163933)

Species Accession Gene Product
Plasmodium berghei PBANKA_0211400   DNA (cytosine-5)-methyltransferase, putative
Plasmodium falciparum PF3D7_0727300   DNA (cytosine-5)-methyltransferase
Plasmodium knowlesi PKNH_0211900   DNA (cytosine-5)-methyltransferase, putative
Plasmodium vivax PVX_081670   DNA (cytosine-5)-methyltransferase, putative
Plasmodium yoelii PY02095   hypothetical protein

Essentiality

PVX_081670 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_0211400 Plasmodium berghei Dispensable plasmo
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0057 0.4497 0.5
0.0528 0.2882 0.4752
0.0225 0.4785 0.5
0.0433 0.2757 0.5
0.0465 0.3259 1
0.0126 0.2647 0.5
0.0514 0.283 0.4039
0.0342 0.4442 0.5
0.0752 0.3883 0.6263
0.0157 0.3941 0.5
0.0206 0.3269 1
0.0581 0.3331 0.5333
0.087 0.2936 1
0.0951 0.4896 0.8104
0.0908 0.5336 1
0.0976 0.2979 1
0.028 0.2661 1
0.0151 0.3224 0.5
0.0072 0.4497 0.5
0.0663 0.3541 0.5648
0.0627 0.3652 0.6888
0.0866 0.6943 1
0.0864 0.2949 1
0.0048 0.7364 0.5
0.0599 0.2531 0.5218
0.0059 0.366 0
0.0064 0.4497 0.5
0.00431057 0.5 0.5
0.0404 0.4405 1
0.0072 0.4497 0.5
0.0341 0.3073 0.5
0.087 0.294 1
0.0062 0.4497 0.5
0.0913 0.2936 1
0.0952 0.5727 0.8064
0.0864 0.296 1
0.0058 0.4497 0.5
0.0061 0.4497 0.5
0.0064 0.2961 1
0.0937 0.4859 1
0.0281 0.295 0.5
0.0546 0.3077 0.4822
0.0483 0.2625 0.4311
0.0585 0.3337 0.5266
0.0901 0.3272 1
0.0072 0.4497 0.5
0.0547 0.3057 0.4793
0.0224 0.4393 1
0.0913 0.2936 1
0.0057 0.4497 0.5
0.0253 0.2572 0.5
0.0483 0.2625 0.4311
0.0585 0.3149 0.5229
0.0901 0.4859 1
0.0663 0.3541 0.5648
0.0582 0.3156 0.5207
0.0511 0.2912 0.4352
0.0913 0.2936 1
0.0839 0.4753 0.7768
0.0913 0.2936 1
0.0061 0.4497 0.5
0.0617 0.3335 0.4997
0.006 0.4497 0.5
0.0225 0.4785 0.5
0.0497 0.2864 0.4601
0.0118 0.3963 0.5
0.0913 0.2936 1
0.0625 0.3621 0.5195
0.0864 0.2949 1
0.006 0.4497 0.5
0.0545 0.3072 0.4809
0.0547 0.3047 0.4807
0.0625 0.3313 0.4857
0.0286 0.5274 0.5
0.087 0.294 1
0.0486 0.3386 1
0.0976 0.2979 1
0.0942 0.486 1
0.0059 0.4497 0.5
0.0158 0.8655 0.5
0.087 0.2936 1
0.0358 0.2591 1
0.029 0.2598 0.5
0.0059 0.4497 0.5
0.0951 0.2977 1
0.0434 0.3112 1
0.0157 0.8656 0.5
0.0599 0.2531 0.5218
0.0581 0.3331 0.5333
0.0158 0.8654 0.5
0.0864 0.296 1
0.087 0.2936 1
0.048 0.256 0.3677
0.0663 0.3541 0.5648
0.0157 0.2524 1
0.0477 0.2556 0.3703
0.0447 0.3212 1
0.0072 0.4497 0.5
0.0436 0.5275 1
0.0518 0.2772 0.4023
0.0956 0.2945 1
0.0157 0.8656 0.5
0.0059 0.3579 0.5
0.0479 0.3336 1
0.0157 0.2524 1
0.088 0.4804 0.7897
0.085 0.459 0.9539
0.0059 0.4497 0.5
0.0705 0.3682 0.5988
0.0911 0.5333 0.867
0.0305 0.5022 0.5
0.0557 0.4052 1
0.0064 0.2961 1
0.0048 0.4497 0.5
0.0499 0.2874 0.4535
0.0619 0.3259 0.4773
0.0157 0.8655 0.5
0.0663 0.3541 0.5648
0.0068 0.4497 0.5
0.0058 0.3563 0
0.0558 0.3087 0.4479
0.0617 0.3335 0.4997
0.0529 0.3132 1
0.0096 0.6636 0.5
0.0956 0.2945 1
0.023 0.4243 1
0.0558 0.3185 0.4531
0.007 0.4497 0.5
0.051 0.369 0.4673
0.054 0.3687 0.4644
0.0558 0.3044 0.4835
0.0898 0.4876 1
0.0091 0.3769 0.5
0.0475 0.3182 0.3852
0.0976 0.2979 1
0.0937 0.4859 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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Gene identifier PVX_081670 (Plasmodium vivax), DNA (cytosine-5)-methyltransferase, putative
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