Detailed view for Bm1_35660

Basic information

TDR Targets ID: 233973
Brugia malayi, Succinate dehydrogenase
Source Database / ID:  GenBank

pI: 9.3491 | Length (AA): 170 | MW (Da): 18802 | 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

PF05328   CybS, succinate dehydrogenase cytochrome B small subunit

Gene Ontology

Mouse over links to read term descriptions.
GO:0016021   integral to membrane  
GO:0016020   membrane  
GO:0005740   mitochondrial envelope  
GO:0020037   heme binding  
GO:0005506   iron ion binding  
GO:0006099   tricarboxylic acid cycle  

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
41 170 4ysx (D) 28 156 63.00 0 0.65 1.32311 1.23
65 170 2h88 (D) 3 103 48.00 0 0.44 1.00133 0.69

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_129488)

Species Accession Gene Product
Brugia malayi Bm1_35660   Succinate dehydrogenase
Candida albicans CaO19.11505   membrane anchor in succinate dehydrogenase complex
Candida albicans CaO19.11949   anchor subunit of succinate dehydrogenase complex
Candida albicans CaO19.4468   anchor subunit of succinate dehydrogenase complex
Candida albicans CaO19.4022   membrane anchor in succinate dehydrogenase complex
Caenorhabditis elegans CELE_F33A8.5   Protein SDHD-1
Dictyostelium discoideum DDB_G0278157   complex II, cytochrome b small subunit
Drosophila melanogaster Dmel_CG10219   CG10219 gene product from transcript CG10219-RA
Echinococcus granulosus EgrG_001043550   succinate dehydrogenase complex subunit D
Echinococcus multilocularis EmuJ_001043600  
Homo sapiens ENSG00000204370   succinate dehydrogenase complex, subunit D, integral membrane protein
Loa Loa (eye worm) LOAG_00689   succinate dehydrogenase
Mus musculus ENSMUSG00000000171   succinate dehydrogenase complex, subunit D, integral membrane protein
Saccharomyces cerevisiae YLR164W   protein SHH4
Saccharomyces cerevisiae YOR297C   Tim18p
Saccharomyces cerevisiae YDR178W   succinate dehydrogenase membrane anchor subunit SDH4
Schistosoma japonicum Sjp_0306250   ko:K00237 succinate dehydrogenase (ubiquinone) membrane anchor subunit, putative
Schistosoma mansoni Smp_037910   succinate dehydrogenase
Schmidtea mediterranea mk4.000185.01   Putative succinate dehydrogenase

Essentiality

Bm1_35660 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F33A8.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_F33A8.5 Caenorhabditis elegans larval arrest wormbase
CELE_F33A8.5 Caenorhabditis elegans slow growth wormbase
YOR297C Saccharomyces cerevisiae inviable yeastgenome
Show/Hide essentiality data references
  • 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
  • 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.
  • 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.
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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

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
Species Known druggable target Linked compounds Reference
Sus scrofa Succinate-ubiquinone oxidoreductase Compounds References
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 Bm1_35660 (Brugia malayi), Succinate dehydrogenase
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