Detailed view for Smp_007660

Basic information

TDR Targets ID: 292815
Schistosoma mansoni, transcription elongation factor s-II
Source Database / ID:  GeneDB

pI: 8.2856 | Length (AA): 318 | MW (Da): 36200 | 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

PF01096   Transcription factor S-II (TFIIS)
PF07500   Transcription factor S-II (TFIIS), central domain
PF08711   TFIIS helical bundle-like domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0006355   regulation of transcription, DNA-dependent  
GO:0006351   transcription, DNA-dependent  
GO:0005634   nucleus  
GO:0008270   zinc ion binding  
GO:0005515   protein binding  
GO:0003746   translation elongation factor activity  
GO:0003711   transcription elongation regulator activity  
GO:0003702   RNA polymerase II transcription factor activity  
GO:0003677   DNA binding  
GO:0003676   nucleic acid binding  
GO:0030528   transcription regulator activity  
GO:0006357   regulation of transcription from RNA polymerase II promoter  
GO:0006354   RNA elongation  
GO:0006350   transcription  
GO:0045449   regulation of transcription  

Metabolic Pathways

Basal transcription factors (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
153 245 3ndq (A) 135 228 57.00 0 1 1.15905 -2.36
156 317 3gtm (S) 150 308 38.00 0 1 0.862034 0.68
270 318 1tfi (A) 2 50 80.00 0 1 1.07369 -0.29

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_127402)

Species Accession Gene Product
Arabidopsis thaliana AT2G38560   transcript elongation factor IIS
Babesia bovis BBOV_I002910   transcription factor S-II (TFIIS)and transcription factor S-II (TFIIS) central domain containing protein
Brugia malayi Bm1_17615   transcription elongation factor S-II (TFIIS)
Candida albicans CaO19.12012   transcriptional elongation factor
Candida albicans CaO19.4537   transcriptional elongation factor
Caenorhabditis elegans CELE_T24H10.1   Protein T24H10.1
Cryptosporidium hominis Chro.80505   transcription elongation factor TFIIS.h
Cryptosporidium parvum cgd8_4400   transcription elongation factor TFIIS
Dictyostelium discoideum DDB_G0278241   RNA polymerase II elongation factor
Drosophila melanogaster Dmel_CG3710   RNA polymerase II elongation factor
Echinococcus granulosus EgrG_000670900   transcription elongation factor A SII 1
Entamoeba histolytica EHI_055430   transcription factor S-II (TFIIS) domain protein
Echinococcus multilocularis EmuJ_000670900   transcription elongation factor A (SII), 1
Homo sapiens ENSG00000187735   transcription elongation factor A (SII), 1
Homo sapiens ENSG00000204219   transcription elongation factor A (SII), 3
Leishmania braziliensis LbrM.24.0200   transcription elongation factor, putative
Leishmania donovani LdBPK_240200.1   transcription elongation factor, putative
Leishmania infantum LinJ.24.0200   transcription elongation factor, putative
Leishmania major LmjF.24.0210   transcription elongation factor, putative
Leishmania mexicana LmxM.24.0210   transcription elongation factor, putative
Loa Loa (eye worm) LOAG_14863   hypothetical protein
Loa Loa (eye worm) LOAG_10358   hypothetical protein
Mus musculus ENSMUSG00000001604   transcription elongation factor A (SII), 3
Mus musculus ENSMUSG00000033813   transcription elongation factor A (SII) 1
Neospora caninum NCLIV_000590   transcription elongation factor TFIIS, putative
Oryza sativa 4334559   Os03g0815900
Oryza sativa 4342769   Os07g0229700
Plasmodium berghei PBANKA_1421100   transcription elongation factor s-II, putative
Plasmodium falciparum PF3D7_0714500   transcription elongation factor s-II, putative
Plasmodium knowlesi PKNH_1423400   transcription elongation factor s-II, putative
Plasmodium vivax PVX_122950   transcription elongation factor, putative
Plasmodium yoelii PY01302   transcription elongation factor TFIIS.h, putative
Saccharomyces cerevisiae YGL043W   Dst1p
Schistosoma japonicum Sjp_0053470   ko:K03145 transcription elongation factor S-II, putative
Schistosoma mansoni Smp_007660   transcription elongation factor s-II
Schmidtea mediterranea mk4.001393.02   Putative transcription elongation factor S-II
Trypanosoma brucei gambiense Tbg972.11.5600   transcription elongation factor, putative
Trypanosoma brucei Tb927.11.4960   transcription elongation factor s-II, putative
Trypanosoma congolense TcIL3000.11.4990   transcription elongation factor, putative
Trypanosoma cruzi TcCLB.507857.10   transcription elongation factor, putative
Trypanosoma cruzi TcCLB.507669.100   transcription elongation factor, putative
Toxoplasma gondii TGME49_293670   transcription elongation factor A TFIIS
Theileria parva TP01_0553   transcription elongation factor SII, putative
Trichomonas vaginalis TVAG_032660   conserved hypothetical protein

Essentiality

Smp_007660 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.2600 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.02.2600 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.02.2600 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.02.2600 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1421100 Plasmodium berghei Essential plasmo
TGME49_293670 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.

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_007660 (Schistosoma mansoni), transcription elongation factor s-II
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