Gene Ontology annotation through association of InterPro records with GO terms
Annotation inferences using phylogenetic trees
Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location vocabulary mapping, accompanied by conservative changes to GO terms applied by UniProt
Combined Automated Annotation using Multiple IEA Methods
YeastPathways to GO-CAM conversion
The proteome of Saccharomyces cerevisiae mitochondria.
Aconitase couples metabolic regulation to mitochondrial DNA maintenance.
Proteome survey reveals modularity of the yeast cell machinery.
Toward the complete yeast mitochondrial proteome: multidimensional separation techniques for mitochondrial proteomics.
Quantitative variations of the mitochondrial proteome and phosphoproteome during fermentative and respiratory growth in Saccharomyces cerevisiae.
The social and structural architecture of the yeast protein interactome.
Molecular genetics of yeast TCA cycle isozymes.
Genes of succinyl-CoA ligase from Saccharomyces cerevisiae.
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Mitochondrial succinyl-CoA ligase activity needs both LSC1 and LSC2.
"Succinyl-CoA ligase activity was absent in mitochondria isolated from strains deleted for one or both LSC genes, but activity was restored by the presence of the appropriate LSC gene on a plasmid"
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The yeast enzyme is ATP-specific.
"The yeast succinyl-CoA ligase was shown to utilize ATP but not GTP for succinyl-CoA synthesis"
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Antiserum to the E. coli enzyme recognises the yeast alpha subunit, which is absent in the lsc1 deletion strain.
"An antiserum against both subunits of the Escherichia coli enzyme was capable of recognizing the yeast succinyl-CoA ligase alpha subunit, and this band was absent in delta lsc1 deletion strains"
Characterization of the ATP- and GTP-specific succinyl-CoA synthetases in pigeon. The enzymes incorporate the same alpha-subunit.
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ATP- and GTP-specific succinyl-CoA synthetases in pigeon share one alpha subunit and differ in the beta subunit, so nucleotide specificity resides in the beta subunit.
"Because the two succinyl-CoA synthetases incorporate the same alpha-subunit, the determinants of nucleotide specificity must reside within the beta-subunit"
Genetic evidence for the expression of ATP- and GTP-specific succinyl-CoA synthetases in multicellular eucaryotes.
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The A-beta and G-beta genes are proposed to have arisen by duplication early in the evolution of multicellular eukaryotes.
"suggests that the A-beta and G-beta genes arose by duplication early in the evolution of multicellular eucaryotes"
Identification and characterisation of the alpha and beta subunits of succinyl CoA ligase of tomato.
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Tomato alpha- and beta-subunit cDNAs complement the yeast lsc1 and lsc2 mutants.
"These three cDNAs were used to complement the respective Saccharomyces cerevisiae mutants deficient in the alpha- and beta-subunit, demonstrating that they encode functionally active polypeptides"
Citrate Regulates the Saccharomyces cerevisiae Mitochondrial GDP/GTP Carrier (Ggc1p) by Triggering Unidirectional Transport of GTP.
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Because yeast succinyl-CoA ligase makes ATP and not GTP, matrix GTP has to be imported by Ggc1p.
"Because in yeast, succinyl-CoA ligase produces ATP instead of GTP"
TCA cycle-independent acetate metabolism via the glyoxylate cycle in Saccharomyces cerevisiae.
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lsc1 deletion has little effect on acetate use on minimal medium but impairs growth on rich acetate medium.
"Deletion of any of the genes for the enzymes solely involved in the TCA cycle (IDH1, KGD1 and LSC1), except for SDH1, caused little defect in acetate utilization on YNBA but resulted in significant growth impairment on YPA"
Landscape of submitochondrial protein distribution.
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Yeast mitochondrial proteins were classified as soluble, peripheral or integral by sonication and carbonate extraction, and soluble proteins were assigned to the matrix or the intermembrane space by reference to outer-membrane and intermembrane-space proteomes. Lsc1 and Lsc2 are listed as soluble matrix proteins in Supplementary Data 5 (not in the cached text; read from the publisher's file).
"We used the well-established OM and IMS reference proteomes17, 31 (Methods section) to deduce the sublocalization of all mitochondrial proteins characterized above"
Conservation of Transit Peptide-Independent Protein Import into the Mitochondrial and Hydrogenosomal Matrix.
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Yeast Lsc1 is one of four matrix proteins reported as processed, with the N-terminal targeting sequence removed, in the yeast mitochondrial N-proteome.
"these proteins were present in a processed form having their mNTS cleaved by a peptidase"
Organization and dynamics of yeast mitochondrial nucleoids.
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A review that lists Lsc1 (succinate-CoA ligase alpha subunit) among the experimentally identified yeast mitochondrial nucleoid proteins and attributes it to Chen et al. 2005 (PMID:15692048), a formaldehyde cross-linking study. Lsc2 is not listed. The table is not in the cached text and was read from the PMC record.
"A list of candidates for the mt-nucleoid proteins determined by us and other laboratories is shown in Table 1."
The yeast mitochondrial succinylome: Implications for regulation of mitochondrial nucleoids.
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Deletion of LSC1 raises overall protein succinylation about 3-fold, a result this paper cites from an earlier proteomic study and uses to enrich succinylated peptides.
"Disruption of Lsc1p, a succinyl-CoA ligase, leads to an approximate 3-fold increase in overall protein succinylation"
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Succinylation of the nucleoid packaging protein Abf2 in vitro inhibits its DNA binding.
"Abf2p succinylation in vitro inhibits its DNA-binding activity"
Computationally driven, quantitative experiments discover genes required for mitochondrial biogenesis.
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A petite-frequency assay on single-gene deletion strains. SGD curates from this survey an increased frequency of spontaneous mitochondrial genome loss for the lsc1 null mutant; LSC1 is not named in the cached text.
"We measured the frequency of petite formation for single gene"
Cloning and expression of the alpha subunit of succinyl-CoA synthetase from Dictyostelium discoideum.
Localization and nucleotide specificity of Blastocystis succinyl-CoA synthetase.
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A taxonomically broad range of eukaryotes (Dictyostelium, Naegleria, Tetrahymena, an Aspergillus) have two distinct forms of the beta subunit. The paper does not date the duplication; that the two forms are older than multicellular animals is this review's inference from it and from the local trees.
"it is clear that a taxonomically broad range of eukaryotes possess two distinct forms of SCSĪ²"
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Blastocystis succinyl-CoA synthetase has Gln at position 20 of the beta subunit and is ATP-specific, so this residue does not by itself decide nucleotide specificity.
"suggests that Blastocystis SCS is GTP-specific, we demonstrate that it is ATP-specific"
Identification of the mitochondrial GTP/GDP transporter in Saccharomyces cerevisiae.
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Yeast mitochondria lacking the GTP/GDP carrier Ggc1 have less GTP and more GDP, which is consistent with matrix GTP being imported and not made by succinyl-CoA synthetase. It does not show that the enzyme cannot use GTP.
"Cells lacking the ggc1 gene had reduced levels of GTP and increased levels of GDP in their mitochondria"
Evolution of the succinyl-CoA synthetase subunit families (LSC1 / LSC2)
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S. cerevisiae and S. pombe each have a single beta subunit, of the A type, so their alpha subunits have no SUCLG2-type partner.
"S. cerevisiae S288c has one beta-subunit entry in UniProt, LSC2 (P53312), and S. pombe has one, O94415; both are A-type genes with Pro20, and neither genome has a second beta gene."
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The fungal genomes in the PANTHER tree have no G-type beta gene, but the absence is not kingdom-wide. Early-diverging fungi keep a SUCLG2-type gene, so the gene was lost within fungi.
"Early-diverging fungi (Mortierellomycota, Basidiobolus, Rozella) keep a SUCLG2-type beta gene with Gln at position 20, so the G-type beta gene was lost within fungi and not in the common ancestor of all fungi."
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The nucleotide specificity of the SUCLG2-type subunits of early-diverging fungi is unknown.
"No enzyme from these fungi has been assayed, so the nucleotide specificity of the fungal SUCLG2-type subunits is unknown."
UniProt entry P53598 (LSC1)
SGD gene description for LSC1 (yeast)
OpenScientist focused report on whether Lsc1 can contribute to GDP-forming succinyl-CoA synthetase activity
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An independent run concluded that the GDP-forming term does not hold for Lsc1, because nucleotide specificity is a beta-subunit property and yeast has a single, ATP-specific beta subunit.
"GO:0004776 is an over-annotation on yeast Lsc1"
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The run recommends that PAINT stop the GDP-forming term before the fungal branch of the alpha-subunit tree.
"GO:0004776 at node PTN000122012 should **not** propagate to the fungal branch of PTHR11117"
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The run dated the A-type/G-type beta duplication to the animal lineage, after fungi diverged, from pairwise identities and PMID:9765291.
"the signature of a gene duplication that occurred **after** the fungal lineage split off"