Detailed view for Smp_066200

Basic information

TDR Targets ID: 283941
Schistosoma mansoni, cytochrome-c oxidase
Source Database / ID:  GeneDB

pI: 5.2148 | Length (AA): 143 | MW (Da): 16516 | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0005740   mitochondrial envelope  
GO:0004129   cytochrome-c oxidase activity  

Metabolic Pathways

Oxidative phosphorylation (KEGG)
Global map (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
7 98 6its (A) 77 170 15.00 0.41 0.01 0.799957 -0.33
84 135 2odx (A) 94 147 29.00 0.0000019 0.52 0.639236 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_129154)

Species Accession Gene Product
Arabidopsis thaliana AT1G80230   cytochrome c oxidase subunit 5b-2
Arabidopsis thaliana AT3G15640   cytochrome c oxidase subunit 5b-1
Brugia malayi Bm1_29430   Cytochrome c oxidase polypeptide Vb, mitochondrial precursor
Candida albicans CaO19.1471   subunit 4 of cytochorme c oxidase
Candida albicans CaO19.9046   subunit 4 of cytochorme c oxidase
Caenorhabditis elegans CELE_F26E4.9   Protein CCO-1
Dictyostelium discoideum DDB_G0269118   cytochrome c oxidase subunit V
Drosophila melanogaster Dmel_CG11015   Cytochrome c oxidase subunit Vb
Echinococcus granulosus EgrG_000699000   cytochrome c oxidase subunit 5B mitochondrial
Echinococcus multilocularis EmuJ_000699000   cytochrome c oxidase subunit 5B, mitochondrial
Homo sapiens 1329   cytochrome c oxidase subunit Vb
Loa Loa (eye worm) LOAG_11501   hypothetical protein
Mus musculus 102641600   cytochrome c oxidase subunit 5B, mitochondrial-like
Mus musculus 12859   cytochrome c oxidase subunit Vb
Mus musculus 102638382   predicted gene, 34962
Oryza sativa 4340088   Os06g0142700
Oryza sativa 4325317   Os01g0612200
Saccharomyces cerevisiae YGL187C   cytochrome c oxidase subunit IV
Schistosoma japonicum Sjp_0200540   ko:K02265 cytochrome c oxidase subunit Vb, putative
Schistosoma mansoni Smp_066200   cytochrome-c oxidase

Essentiality

Smp_066200 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F26E4.9 Caenorhabditis elegans embryonic lethal wormbase
CELE_F26E4.9 Caenorhabditis elegans larval arrest wormbase
CELE_F26E4.9 Caenorhabditis elegans slow growth wormbase
Show/Hide essentiality data references
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.

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_066200 (Schistosoma mansoni), cytochrome-c oxidase
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