Detailed view for Smp_010260

Basic information

TDR Targets ID: 282761
Schistosoma mansoni, xpa DNA repair protein family
Source Database / ID:  GeneDB

pI: 7.389 | Length (AA): 289 | MW (Da): 34117 | 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

PF01286   XPA protein N-terminal
PF05181   XPA protein C-terminus

Gene Ontology

Mouse over links to read term descriptions.
GO:0005634   nucleus  
GO:0003684   damaged DNA binding  
GO:0000166   nucleotide binding  
GO:0006289   nucleotide-excision repair  

Metabolic Pathways

Nucleotide excision repair (KEGG)

Structural information

Modbase 3D models:

There are 2 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
113 225 1xpa (A) 98 210 50.00 0 1 1.0248 -0.41
118 222 5a3d (A) 189 294 35.00 0.00000000021 1 0.867122 -0.83

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_129961)

Species Accession Gene Product
Brugia malayi Bm1_06105   XPA protein N-terminal containing protein
Candida albicans CaO19.13870   Zn-binding nucleotide exision repairosome
Candida albicans CaO19.6517   Zn-binding nucleotide exision repairosome
Candida albicans CaO19_6517   hypothetical protein
Caenorhabditis elegans CELE_K07G5.2   Protein XPA-1
Cryptosporidium hominis Chro.40079   hypothetical protein
Cryptosporidium parvum cgd4_630   RAD14/XpA, DNA excision repair protein
Drosophila melanogaster Dmel_CG6358   Xeroderma pigmentosum group A-like
Echinococcus granulosus EgrG_000200100   DNA repair protein complementing XP A cells
Echinococcus multilocularis EmuJ_000200100   DNA repair protein complementing XP A cells
Homo sapiens ENSG00000136936   xeroderma pigmentosum, complementation group A
Loa Loa (eye worm) LOAG_09881   xeroderma pigmentosum group A
Mus musculus ENSMUSG00000028329   xeroderma pigmentosum, complementation group A
Saccharomyces cerevisiae YMR201C   Rad14p
Schistosoma japonicum Sjp_0303850   DNA-repair protein complementing XP-A cells homolog, putative
Schistosoma mansoni Smp_010260   xpa DNA repair protein family
Schmidtea mediterranea mk4.001705.01   DNA repair protein complementing XP-A cells

Essentiality

Smp_010260 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_K07G5.2 Caenorhabditis elegans embryonic lethal wormbase
Show/Hide essentiality data references
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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_010260 (Schistosoma mansoni), xpa DNA repair protein family
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