Detailed view for Smp_178850

Basic information

TDR Targets ID: 294150
Schistosoma mansoni, poly(A) polymerase
Source Database / ID:  GeneDB

pI: 6.95 | Length (AA): 496 | MW (Da): 56948 | 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

PF01909   Nucleotidyltransferase domain
PF04926   Poly(A) polymerase predicted RNA binding domain
PF04928   Poly(A) polymerase central domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005634   nucleus  
GO:0016779   nucleotidyltransferase activity  
GO:0004652   polynucleotide adenylyltransferase activity  
GO:0003723   RNA binding  
GO:0031123   RNA 3'-end processing  
GO:0006350   transcription  
GO:0043631   RNA polyadenylation  

Metabolic Pathways

mRNA surveillance pathway (KEGG)

Structural information

Modbase 3D models:

There are 3 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
14 496 4lt6 (A) 17 489 47.00 0 1 1.54029 -0.89
14 496 2q66 (A) 5 490 36.00 0 1 1.47499 -0.77
15 496 1q79 (A) 19 490 46.00 0 1 1.53027 -0.91

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_127104)

Species Accession Gene Product
Arabidopsis thaliana AT1G17980   poly(A) polymerase 1
Arabidopsis thaliana AT2G25850   poly(A) polymerase 2
Arabidopsis thaliana AT4G32850   nuclear poly(a) polymerase
Babesia bovis BBOV_I000930   poly(A) polymerase PAP, putative
Brugia malayi Bm1_51410   Poly polymerase central domain containing protein
Candida albicans CaO19.10713   poly(A) polymerase allele associated with the Mating Type-Like alpha locus
Candida albicans CaO19.3197   poly(A) polymerase allele associated with the Mating Type-Like a locus
Caenorhabditis elegans CELE_F43G6.5   Protein F43G6.5
Caenorhabditis elegans CELE_Y32F6A.3   Protein PAP-1
Caenorhabditis elegans CELE_T15H9.6   Protein T15H9.6
Cryptosporidium hominis Chro.40112   hypothetical protein
Cryptosporidium parvum cgd4_930   pap1p; poly A polymerase (eukaryotic type)
Dictyostelium discoideum DDB_G0288259   poly polymerase
Drosophila melanogaster Dmel_CG9854   hiiragi
Echinococcus granulosus EgrG_000244600   PolyA polymerase PAPalpha
Echinococcus granulosus EgrG_001190100   polyA polymerase
Entamoeba histolytica EHI_012040   poly(A) polymerase, putative
Echinococcus multilocularis EmuJ_000244600   Poly(A) polymerase PAPalpha
Echinococcus multilocularis EmuJ_001190100   poly(A) polymerase
Giardia lamblia GL50803_13749   Hypothetical protein
Homo sapiens ENSG00000090060   poly(A) polymerase alpha
Homo sapiens ENSG00000115421   poly(A) polymerase gamma
Homo sapiens ENSG00000218823   poly(A) polymerase beta (testis specific)
Leishmania braziliensis LbrM.14.1350   poly(A) polymerase, putative,polynucleotide adenylyltransferase, putative
Leishmania donovani LdBPK_141260.1   poly(A) polymerase, putative
Leishmania infantum LinJ.14.1260   poly(A) polymerase, putative,polynucleotide adenylyltransferase, putative
Leishmania major LmjF.14.1180   poly(A) polymerase, putative,polynucleotide adenylyltransferase, putative
Leishmania mexicana LmxM.14.1180   poly(A) polymerase, putative,polynucleotide adenylyltransferase, putative
Loa Loa (eye worm) LOAG_00977   hypothetical protein
Mus musculus ENSMUSG00000020273   poly(A) polymerase gamma
Mus musculus ENSMUSG00000021111   poly (A) polymerase alpha
Mus musculus 56522   poly (A) polymerase beta (testis specific)
Neospora caninum NCLIV_046750   hypothetical protein
Oryza sativa 4328790   Os02g0227400
Oryza sativa 9267100   Os08g0278750
Oryza sativa 4340886   Os06g0319600
Oryza sativa 9268632   Os06g0558700
Onchocerca volvulus OVOC6913  
Onchocerca volvulus OVOC12829  
Plasmodium berghei PBANKA_1124500   poly(A) polymerase PAP, putative
Plasmodium falciparum PF3D7_0625600   poly(A) polymerase PAP, putative
Plasmodium knowlesi PKNH_1124200   poly(A) polymerase PAP, putative
Plasmodium vivax PVX_114385   poly(A) polymerase PAP, putative
Plasmodium yoelii PY02044   poly(A) polymerase III
Saccharomyces cerevisiae YKR002W   polynucleotide adenylyltransferase PAP1
Schistosoma japonicum Sjp_0073870   ko:K00970 poly(A) polymerase [EC2.7.7.19], putative
Schistosoma mansoni Smp_178850   poly(A) polymerase
Schmidtea mediterranea mk4.002783.02  
Schmidtea mediterranea mk4.014784.01  
Schmidtea mediterranea mk4.000872.02  
Schmidtea mediterranea mk4.000098.00  
Schmidtea mediterranea mk4.013359.02  
Schmidtea mediterranea mk4.000466.06  
Schmidtea mediterranea mk4.002132.07  
Schmidtea mediterranea mk4.007297.00  
Schmidtea mediterranea mk4.013561.00  
Schmidtea mediterranea mk4.006026.00  
Schmidtea mediterranea mk4.001702.06  
Trypanosoma brucei gambiense Tbg972.7.4210   poly(A) polymerase, putative
Trypanosoma brucei Tb927.7.3780   Nuclear poly(A) polymerase 2
Trypanosoma congolense TcIL3000_7_3040   poly(A) polymerase, putative
Trypanosoma cruzi TcCLB.509937.10   polynucleotide adenylyltransferase, putative
Trypanosoma cruzi TcCLB.506795.50   poly(A) polymerase, putative
Toxoplasma gondii TGME49_226080   polyA polymerase
Theileria parva TP01_0037   poly(A) polymerase, putative
Trichomonas vaginalis TVAG_127020   poly A polymerase, putative
Trichomonas vaginalis TVAG_388620   poly(A) polymerase gamma, putative

Essentiality

Smp_178850 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.3780 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.3780 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.7.3780 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.3780 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y32F6A.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y32F6A.3 Caenorhabditis elegans larval arrest wormbase
CELE_Y32F6A.3 Caenorhabditis elegans larval lethal wormbase
CELE_Y32F6A.3 Caenorhabditis elegans slow growth wormbase
CELE_Y32F6A.3 Caenorhabditis elegans sterile wormbase
YKR002W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1124500 Plasmodium berghei Essential plasmo
TGME49_226080 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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
  • 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

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.

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Gene identifier Smp_178850 (Schistosoma mansoni), poly(A) polymerase
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