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Protein

Succinate--CoA ligase [ADP-forming] subunit alpha

Gene

sucD

Organism
Agrobacterium vitis (strain S4 / ATCC BAA-846) (Rhizobium vitis (strain S4))
Status
Unreviewed-Annotation score: -Protein inferred from homologyi

Functioni

Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit.UniRule annotation

Catalytic activityi

ATP + succinate + CoA = ADP + phosphate + succinyl-CoA.UniRule annotation

Pathwayi: tricarboxylic acid cycle

This protein is involved in step 1 of the subpathway that synthesizes succinate from succinyl-CoA (ligase route).UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Succinate--CoA ligase [ADP-forming] subunit beta (sucC), Succinate--CoA ligase [ADP-forming] subunit alpha (sucD)
This subpathway is part of the pathway tricarboxylic acid cycle, which is itself part of Carbohydrate metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes succinate from succinyl-CoA (ligase route), the pathway tricarboxylic acid cycle and in Carbohydrate metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei44Coenzyme AUniRule annotation1
Binding sitei165Substrate; shared with subunit betaUniRule annotation1
Active sitei257Tele-phosphohistidine intermediateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLigaseUniRule annotation
Biological processTricarboxylic acid cycleUniRule annotation
LigandNucleotide-bindingUniRule annotation

Enzyme and pathway databases

UniPathwayi
UPA00223;UER00999

Names & Taxonomyi

Protein namesi
Recommended name:
Succinate--CoA ligase [ADP-forming] subunit alphaUniRule annotation (EC:6.2.1.5UniRule annotation)
Alternative name(s):
Succinyl-CoA synthetase subunit alphaUniRule annotation
Short name:
SCS-alphaUniRule annotation
Gene namesi
Name:sucDUniRule annotationImported
Ordered Locus Names:Avi_4124Imported
OrganismiAgrobacterium vitis (strain S4 / ATCC BAA-846) (Rhizobium vitis (strain S4))Imported
Taxonomic identifieri311402 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupAgrobacterium
Proteomesi
  • UP000001596 Componenti: Chromosome 1

Interactioni

Subunit structurei

Heterotetramer of two alpha and two beta subunits.UniRule annotation

Protein-protein interaction databases

STRINGi311402.Avi_4124

Structurei

3D structure databases

ProteinModelPortaliB9JTS6
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini4 – 106CoA_bindingInterPro annotationAdd BLAST103

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni17 – 20Coenzyme A bindingUniRule annotation4
Regioni102 – 104Coenzyme A bindingUniRule annotation3

Sequence similaritiesi

Belongs to the succinate/malate CoA ligase alpha subunit family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CH8 Bacteria
COG0074 LUCA
HOGENOMiHOG000239685
KOiK01902
OMAiIIFVPPA
OrthoDBiPOG091H04FK

Family and domain databases

Gene3Di3.40.50.261, 1 hit
HAMAPiMF_01988 Succ_CoA_alpha, 1 hit
InterProiView protein in InterPro
IPR017440 Cit_synth/succinyl-CoA_lig_AS
IPR033847 Citrt_syn/SCS-alpha_CS
IPR003781 CoA-bd
IPR005810 CoA_lig_alpha
IPR005811 CoA_ligase
IPR036291 NAD(P)-bd_dom_sf
IPR016102 Succinyl-CoA_synth-like
PfamiView protein in Pfam
PF02629 CoA_binding, 1 hit
PF00549 Ligase_CoA, 1 hit
PIRSFiPIRSF001553 SucCS_alpha, 1 hit
SMARTiView protein in SMART
SM00881 CoA_binding, 1 hit
SUPFAMiSSF51735 SSF51735, 1 hit
SSF52210 SSF52210, 1 hit
TIGRFAMsiTIGR01019 sucCoAalpha, 1 hit
PROSITEiView protein in PROSITE
PS01216 SUCCINYL_COA_LIG_1, 1 hit
PS00399 SUCCINYL_COA_LIG_2, 1 hit

Sequencei

Sequence statusi: Complete.

B9JTS6-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSILINKDTK VLVQGLTGKT GTFHTEQALA YYGTKMVGGI HPAKGGSNWT
60 70 80 90 100
GSKGETLPIF ASVAEGKDVT GANASVIYVP PAGAAAAIIE AIEAEIPLIV
110 120 130 140 150
CITEGIPVAD MVKVKARLDK SKSRLIGPNC PGVMTPEECK IGIMPGSIFR
160 170 180 190 200
KGSVGVLSRS GTLTYEAVFQ TSNEGLGQTS AVGIGGDPVK GTEFIDILEM
210 220 230 240 250
YLADEATKSI IMIGEIGGSA EEEAAQFLKD EAKKGRKKPM VGFIAGRTAP
260 270 280 290 300
PGRTMGHAGA VISGGKGGAE DKIEAMESAG IRVSPSPARL GKTLVEVLKG
Length:300
Mass (Da):30,900
Last modified:March 24, 2009 - v1
Checksum:i9005362E58D9969F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000633 Genomic DNA Translation: ACM37984.1
RefSeqiWP_015917395.1, NC_011989.1

Genome annotation databases

EnsemblBacteriaiACM37984; ACM37984; Avi_4124
GeneIDi31496900
KEGGiavi:Avi_4124

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000633 Genomic DNA Translation: ACM37984.1
RefSeqiWP_015917395.1, NC_011989.1

3D structure databases

ProteinModelPortaliB9JTS6
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi311402.Avi_4124

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACM37984; ACM37984; Avi_4124
GeneIDi31496900
KEGGiavi:Avi_4124

Phylogenomic databases

eggNOGiENOG4105CH8 Bacteria
COG0074 LUCA
HOGENOMiHOG000239685
KOiK01902
OMAiIIFVPPA
OrthoDBiPOG091H04FK

Enzyme and pathway databases

UniPathwayi
UPA00223;UER00999

Family and domain databases

Gene3Di3.40.50.261, 1 hit
HAMAPiMF_01988 Succ_CoA_alpha, 1 hit
InterProiView protein in InterPro
IPR017440 Cit_synth/succinyl-CoA_lig_AS
IPR033847 Citrt_syn/SCS-alpha_CS
IPR003781 CoA-bd
IPR005810 CoA_lig_alpha
IPR005811 CoA_ligase
IPR036291 NAD(P)-bd_dom_sf
IPR016102 Succinyl-CoA_synth-like
PfamiView protein in Pfam
PF02629 CoA_binding, 1 hit
PF00549 Ligase_CoA, 1 hit
PIRSFiPIRSF001553 SucCS_alpha, 1 hit
SMARTiView protein in SMART
SM00881 CoA_binding, 1 hit
SUPFAMiSSF51735 SSF51735, 1 hit
SSF52210 SSF52210, 1 hit
TIGRFAMsiTIGR01019 sucCoAalpha, 1 hit
PROSITEiView protein in PROSITE
PS01216 SUCCINYL_COA_LIG_1, 1 hit
PS00399 SUCCINYL_COA_LIG_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiB9JTS6_AGRVS
AccessioniPrimary (citable) accession number: B9JTS6
Entry historyiIntegrated into UniProtKB/TrEMBL: March 24, 2009
Last sequence update: March 24, 2009
Last modified: July 18, 2018
This is version 73 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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