Detailed view for Smp_060820

Basic information

TDR Targets ID: 284199
Schistosoma mansoni, succinyl-CoA synthetase beta chain
Source Database / ID:  GeneDB

pI: 6.5537 | Length (AA): 441 | MW (Da): 47941 | Paralog Number: 1

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

PF00549   CoA-ligase
PF08442   ATP-grasp domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0006104   succinyl-CoA metabolic process  
GO:0004776   succinate-CoA ligase (GDP-forming) activity  
GO:0005524   ATP binding  
GO:0003824   catalytic activity  
GO:0006099   tricarboxylic acid cycle  
GO:0008152   metabolic process  

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
22 425 2fp4 (B) 1 390 53.00 0 1 1.5465 -0.54
22 440 6g4q (B) 53 457 43.00 0 1 1.40251 -0.26

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_126862)

Species Accession Gene Product
Arabidopsis thaliana AT2G20420   Succinyl-CoA ligase [GDP-forming] subunit beta
Babesia bovis BBOV_IV010490   succinly CoA-ligase beta subunit, putative
Brugia malayi Bm1_00840   succinyl-CoA ligase [ADP-forming] beta-chain, mitochondrial
Candida albicans CaO19.710   similar to C terminus of S. cerevisiae LSC2 (YGR244C) succinyl-CoA synthetase beta-subunit
Candida albicans CaO19.8329   similar to C terminus of S. cerevisiae LSC2 (YGR244C) succinyl-CoA synthetase beta-subunit
Caenorhabditis elegans CELE_C50F7.4   Protein SUCG-1
Caenorhabditis elegans CELE_F47B10.1   Protein SUCA-1
Chlamydia trachomatis CT_821   succinyl-CoA ligase subunit beta
Dictyostelium discoideum DDB_G0274449   GTP-specific succinyl-CoA synthetase beta subunit
Dictyostelium discoideum DDB_G0271842   ATP-specific succinyl-CoA synthetase beta subunit
Drosophila melanogaster Dmel_CG11963   skpA associated protein
Drosophila melanogaster Dmel_CG10622   CG10622 gene product from transcript CG10622-RA
Escherichia coli b0728   succinyl-CoA synthetase, beta subunit
Echinococcus granulosus EgrG_000519200   succinyl coenzyme A ligase ADP forming subunit beta
Echinococcus granulosus EgrG_000818100   succinyl coenzyme A ligase GDP forming subunit beta
Echinococcus multilocularis EmuJ_000818100   succinyl coenzyme A ligase (GDP forming) subunit beta
Echinococcus multilocularis EmuJ_000519200   succinyl coenzyme A ligase (ADP forming) subunit beta
Homo sapiens ENSG00000172340   succinate-CoA ligase, GDP-forming, beta subunit
Homo sapiens ENSG00000136143   succinate-CoA ligase, ADP-forming, beta subunit
Leishmania braziliensis LbrM.35.3170   succinyl-CoA ligase [GDP-forming] beta-chain, putative;with=GeneDB:LmjF36.2950
Leishmania donovani LdBPK_363100.1   succinyl-CoA ligase [GDP-forming] beta-chain, putative
Leishmania infantum LinJ.36.3100   succinyl-CoA ligase [GDP-forming] beta-chain, putative;with=GeneDB:LmjF36.2950
Leishmania major LmjF.36.2950   succinyl-CoA ligase [GDP-forming] beta-chain, putative
Leishmania mexicana LmxM.36.2950   succinyl-CoA ligase [GDP-forming] beta-chain, putative
Loa Loa (eye worm) LOAG_13194   succinate-CoA ligase
Loa Loa (eye worm) LOAG_09172   hypothetical protein
Mycobacterium leprae ML0155   Probable succinyl-CoA synthase, (beta chain) SucC (SCS-beta)
Mus musculus ENSMUSG00000022110   succinate-Coenzyme A ligase, ADP-forming, beta subunit
Mus musculus ENSMUSG00000061838   succinate-Coenzyme A ligase, GDP-forming, beta subunit
Mycobacterium tuberculosis Rv0951   Probable succinyl-CoA synthetase (beta chain) SucC (SCS-beta)
Mycobacterium ulcerans MUL_4720   succinyl-CoA synthetase subunit beta
Neospora caninum NCLIV_053880   cDNA FLJ54097, highly similar to Succinyl-CoA ligase (ADP-forming) beta-chain, mitochondrial (EC 6.2.1.5), related
Oryza sativa 4330016   Os02g0621700
Onchocerca volvulus OVOC1752  
Plasmodium berghei PBANKA_1013200   succinyl-CoA ligase [ADP-forming] subunit beta, putative
Plasmodium falciparum PF3D7_1431600   succinyl-CoA ligase [ADP-forming] subunit beta, putative
Plasmodium knowlesi PKNH_1327100   succinyl-CoA ligase [ADP-forming] subunit beta, putative
Plasmodium vivax PVX_084960   ATP-specific succinyl-CoA synthetase beta subunit, putative
Plasmodium yoelii PY02175   succinyl-coa ligase beta-chain, hydrogenosomal precursor
Saccharomyces cerevisiae YGR244C   succinate--CoA ligase (GDP-forming) subunit beta
Schistosoma japonicum Sjp_0017100   ko:K01898 succinate--CoA ligase (GDP-forming) [EC6.2.1.4], putative
Schistosoma japonicum Sjp_0111950   ko:K01903 succinyl-CoA synthetase beta chain [EC6.2.1.5B], putative
Schistosoma mansoni Smp_060820   succinyl-CoA synthetase beta chain
Schistosoma mansoni Smp_167330   succinyl-CoA synthetase beta chain
Schmidtea mediterranea mk4.002918.02  
Schmidtea mediterranea mk4.002918.01   Putative succinyl-CoA synthetase beta chain
Schmidtea mediterranea mk4.028028.01   Succinyl-CoA ligase
Schmidtea mediterranea mk4.058520.00  
Schmidtea mediterranea mk4.006545.00   Putative succinyl-CoA synthetase beta chain
Schmidtea mediterranea mk4.013183.01   Succinyl-CoA ligase
Schmidtea mediterranea mk4.002918.03   Probable succinyl-CoA ligase
Schmidtea mediterranea mk4.006770.01   Succinyl-CoA ligase
Schmidtea mediterranea mk4.028028.00  
Schmidtea mediterranea mk4.013183.00   Succinyl-CoA ligase
Trypanosoma brucei gambiense Tbg972.10.9090   succinyl-CoA ligase [GDP-forming] beta-chain, putative
Trypanosoma brucei Tb927.10.7410   succinyl-CoA ligase [GDP-forming] beta-chain, putative
Trypanosoma cruzi TcCLB.507681.20   succinyl-CoA ligase [GDP-forming] beta-chain, putative
Toxoplasma gondii TGME49_309752   succinate-Coenzyme A ligase, beta subunit, putative
Theileria parva TP01_0677   ATP-specific succinyl-CoA synthetase beta subunit, putative
Trichomonas vaginalis TVAG_259190   succinate thiokinase, beta subunit
Trichomonas vaginalis TVAG_183500   succinate thiokinase, beta subunit
Trichomonas vaginalis TVAG_144730   succinate thiokinase, beta subunit
Wolbachia endosymbiont of Brugia malayi Wbm0520   succinyl-CoA synthetase subunit beta

Essentiality

Smp_060820 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu966 Mycobacterium tuberculosis essential nmpdr
Tb927.10.7410 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.7410 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.7410 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.7410 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b0728 Escherichia coli non-essential goodall
CELE_C50F7.4 Caenorhabditis elegans embryonic lethal wormbase
YGR244C Saccharomyces cerevisiae inviable yeastgenome
TGME49_309752 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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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Gene identifier Smp_060820 (Schistosoma mansoni), succinyl-CoA synthetase beta chain
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