Detailed view for Smp_131560

Basic information

TDR Targets ID: 295365
Schistosoma mansoni, rna polymerase II ctd phosphatase
Source Database / ID:  GeneDB

pI: 5.385 | Length (AA): 1345 | MW (Da): 152424 | Paralog Number: 0

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

Druggability Group : DG1

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

PF03031   NLI interacting factor-like phosphatase

Gene Ontology

Mouse over links to read term descriptions.
GO:0005634   nucleus  
GO:0005622   intracellular  
GO:0004721   phosphoprotein phosphatase activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 7 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
4 65 2dnc (A) 2 65 19.00 0.012 0.13 0.115697 0.42
14 79 5gua (A) 82 147 21.00 0.087 0.58 0.319671 -0.64
136 393 4xpz (A) 150 427 28.00 0.0000086 1 0.550422 -0.8
140 383 4xpz (A) 154 419 33.00 0 1 0.562713 -0.7
149 319 3qle (A) 190 345 24.00 0.34 0.92 0.314438 0.16
351 456 5cf3 (A) 106 221 33.00 0.24 0.08 0.18711 0.51
625 728 3pd7 (A) 903 994 18.00 0.00008 0.03 0.0909234 -0.12

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_129170)

Species Accession Gene Product
Arabidopsis thaliana AT5G58003   C-terminal domain phosphatase-like 4
Brugia malayi Bm1_14230   NLI interacting factor-like phosphatase family protein
Candida albicans CaO19.14034   similar to S. cerevisiae FCP1 (YMR277W) TFIIF interacting Component of CTD Phosphatase
Candida albicans CaO19.6742   similar to S. cerevisiae FCP1 (YMR277W) TFIIF interacting Component of CTD Phosphatase
Caenorhabditis elegans CELE_F36F2.6   Protein FCP-1
Dictyostelium discoideum DDB_G0271690   hypothetical protein
Drosophila melanogaster Dmel_CG12252   CG12252 gene product from transcript CG12252-RB
Echinococcus granulosus EgrG_000495900   RNA polymerase II subunit A C terminal domain
Echinococcus granulosus EgrG_000185200   RNA polymerase II subunit A C terminal domain
Echinococcus multilocularis EmuJ_000372500   hypothetical protein
Echinococcus multilocularis EmuJ_000495900   RNA polymerase II subunit A C terminal domain
Echinococcus multilocularis EmuJ_000185200   RNA polymerase II subunit A C terminal domain
Homo sapiens ENSG00000060069   CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1
Loa Loa (eye worm) LOAG_00540   hypothetical protein
Mus musculus ENSMUSG00000033323   CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1
Neospora caninum NCLIV_045130   hypothetical protein
Oryza sativa 4338679   Os05g0390500
Saccharomyces cerevisiae YMR277W   Fcp1p
Schistosoma japonicum Sjp_0072470   ko:K01090 protein phosphatase [EC3.1.3.16], putative
Schistosoma mansoni Smp_131560   rna polymerase II ctd phosphatase
Schmidtea mediterranea mk4.003305.02   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.001217.03   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.021572.00   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.004264.00   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.016013.00   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.021388.00   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.002268.00   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.022267.02   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.010734.00   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.020918.00  
Schmidtea mediterranea mk4.000051.03   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.003579.04   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.003768.04   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.004966.00   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.000854.10   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.009388.00   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.022381.00  
Schmidtea mediterranea mk4.012474.00   RNA polymerase II subunit A C-terminal domain phosphatase
Schmidtea mediterranea mk4.000365.06   RNA polymerase II subunit A C-terminal domain phosphatase
Toxoplasma gondii TGME49_228330   NLI interacting factor family phosphatase
Trichomonas vaginalis TVAG_095200   RNA polymerase II ctd phosphatase, putative
Trichomonas vaginalis TVAG_206010   RNA polymerase II ctd phosphatase, putative

Essentiality

Smp_131560 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F36F2.6 Caenorhabditis elegans embryonic lethal wormbase
YMR277W Saccharomyces cerevisiae inviable yeastgenome
TGME49_228330 Toxoplasma gondii Probably essential sidik
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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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.

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
No druggable targets predicted through repurposing network model

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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier Smp_131560 (Schistosoma mansoni), rna polymerase II ctd phosphatase
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