Detailed view for Smp_088280

Basic information

TDR Targets ID: 294510
Schistosoma mansoni, chromatin-specific transcription elongation factor 140 kDa subunit (M24 family)
Source Database / ID:  GeneDB

pI: 5.2412 | Length (AA): 1091 | MW (Da): 123813 | Paralog Number: 0

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

Druggability Group : DG2

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

PF00557   Metallopeptidase family M24
PF08512   Histone chaperone Rttp106-like
PF08644   FACT complex subunit (SPT16/CDC68)
PF14826   FACT complex subunit SPT16 N-terminal lobe domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0009987   cellular process  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
3 430 5e5b (A) 2 432 40.00 0 1 1.0033 -1.52
21 467 3ctz (A) 177 618 13.00 0 1 0.469316 0.11
689 971 4z2n (A) 646 926 66.00 0 1 1.07 -1.1
971 1054 2nca (A) 13 96 15.00 0 0 0.422594 -2.24

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_128055)

Species Accession Gene Product
Arabidopsis thaliana AT4G10710   FACT complex subunit SPT16
Babesia bovis BBOV_II002690   transcriptional regulator, putative
Brugia malayi Bm1_25885   metallopeptidase family M24 containing protein
Candida albicans CaO19.2884   similar to S. cerevisiae SPT16 (YGL207W) RNA Pol II transcriptional elongation regulator involved in chromatin remodeling
Candida albicans CaO19.10402   similar to S. cerevisiae SPT16 (YGL207W) RNA Pol II transcriptional elongation regulator involved in chromatin remodeling
Caenorhabditis elegans CELE_F55A3.3   Protein F55A3.3
Cryptosporidium hominis Chro.70222   DUF140-related
Cryptosporidium parvum cgd7_1930   CDC68 like aminopeptidase family chromatinic protein (possible inactive enzyme)
Dictyostelium discoideum DDB_G0282677   FACT complex subunit SPT16
Drosophila melanogaster Dmel_CG1828   CG1828 gene product from transcript CG1828-RB
Echinococcus granulosus EgrG_001138800   FACT complex subunit SPT16
Entamoeba histolytica EHI_109860   chromatin-specific transcription elongation factor, putative
Echinococcus multilocularis EmuJ_001138800   FACT complex subunit SPT16
Giardia lamblia GL50803_17430   DRE4 protein
Homo sapiens ENSG00000092201   suppressor of Ty 16 homolog (S. cerevisiae)
Leishmania braziliensis LbrM.29.0030   transcription factor-like protein
Leishmania donovani LdBPK_290020.1   transcription factor-like protein
Leishmania infantum LinJ.29.0020   transcription factor-like protein
Leishmania major LmjF.29.0020   transcription factor-like protein
Leishmania mexicana LmxM.08_29.0020   transcription factor-like protein
Loa Loa (eye worm) LOAG_04502   metallopeptidase family M24 containing protein
Mus musculus ENSMUSG00000035726   suppressor of Ty 16
Neospora caninum NCLIV_005190   transcription elongation factor FACT 140 kDa, putative
Oryza sativa 4352155   Os12g0446500
Oryza sativa 4335478   Os04g0321600
Onchocerca volvulus OVOC12128   FACT complex subunit SPT16 homolog
Plasmodium berghei PBANKA_1232200   FACT complex subunit SPT16
Plasmodium falciparum PF3D7_0517400   FACT complex subunit SPT16, putative
Plasmodium knowlesi PKNH_1015900   FACT complex subunit SPT16, putative
Plasmodium vivax PVX_080380   FACT complex subunit SPT16, putative
Plasmodium yoelii PY05380   DUF140-related
Saccharomyces cerevisiae YGL207W   chromatin-remodeling protein SPT16
Schistosoma japonicum Sjp_0104280   FACT complex subunit spt16, putative
Schistosoma japonicum Sjp_0200860   expressed protein
Schistosoma mansoni Smp_088280   chromatin-specific transcription elongation factor 140 kDa subunit (M24 family)
Schmidtea mediterranea mk4.001387.02   FACT complex subunit SPT16
Schmidtea mediterranea mk4.001387.01   Chromatin-specific transcription elongation factor 140 kDa subunit
Schmidtea mediterranea mk4.029008.00   FACT complex subunit SPT16
Trypanosoma brucei gambiense Tbg972.3.6320   hypothetical protein, conserved
Trypanosoma brucei Tb927.3.5620   Facilitates chromatin transcription complex subunit spt16
Trypanosoma congolense TcIL3000_3_3560   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.509761.10   Metallopeptidase family M24/FACT complex subunit (SPT16/CDC68)/Histone chaperone Rttp106-like, putative
Toxoplasma gondii TGME49_221670   transcriptional elongation factor FACT140
Theileria parva TP04_0312   hypothetical protein
Theileria parva TP04_0311   transcriptional regulator, putative
Trichomonas vaginalis TVAG_212800   Clan MG, familly M24, aminopeptidase P-like metallopeptidase

Essentiality

Smp_088280 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.5620 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.3.5620 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.3.5620 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.3.5620 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F55A3.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_F55A3.3 Caenorhabditis elegans slow growth wormbase
YGL207W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1232200 Plasmodium berghei Essential plasmo
TGME49_221670 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • 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.

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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User comments

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Gene identifier Smp_088280 (Schistosoma mansoni), chromatin-specific transcription elongation factor 140 kDa subunit (M24 family)
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