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Protein

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

Gene

sucC

Organism
Agrobacterium vitis (strain S4 / ATCC BAA-846) (Rhizobium vitis (strain S4))
Status
Reviewed-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 beta subunit provides nucleotide specificity of the enzyme and binds the substrate succinate, while the binding sites for coenzyme A and phosphate are found in the alpha subunit.UniRule annotation

Catalytic activityi

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

Cofactori

Mg2+UniRule annotationNote: Binds 1 Mg2+ ion per subunit.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 sitei46ATPUniRule annotation1
Binding sitei109ATPUniRule annotation1
Binding sitei112ATP; via amide nitrogenUniRule annotation1
Binding sitei117ATPUniRule annotation1
Metal bindingi209MagnesiumUniRule annotation1
Metal bindingi223MagnesiumUniRule annotation1
Binding sitei274Substrate; shared with subunit alphaUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi53 – 55ATPUniRule annotation3

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLigase
Biological processTricarboxylic acid cycle
LigandATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

UniPathwayi
UPA00223;UER00999

Names & Taxonomyi

Protein namesi
Recommended name:
Succinate--CoA ligase [ADP-forming] subunit betaUniRule annotation (EC:6.2.1.5UniRule annotation)
Alternative name(s):
Succinyl-CoA synthetase subunit betaUniRule annotation
Short name:
SCS-betaUniRule annotation
Gene namesi
Name:sucCUniRule annotation
Ordered Locus Names:Avi_4127
OrganismiAgrobacterium vitis (strain S4 / ATCC BAA-846) (Rhizobium vitis (strain S4))
Taxonomic identifieri311402 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupAgrobacterium
Proteomesi
  • UP000001596 Componenti: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10001976911 – 398Succinate--CoA ligase [ADP-forming] subunit betaAdd BLAST398

Proteomic databases

PRIDEiB9JTS8

Interactioni

Subunit structurei

Heterotetramer of two alpha and two beta subunits.UniRule annotation

Protein-protein interaction databases

STRINGi311402.Avi_4127

Structurei

3D structure databases

SMRiB9JTS8
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini9 – 254ATP-graspUniRule annotationAdd BLAST246

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni331 – 333Substrate binding; shared with subunit alphaUniRule annotation3

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CMV Bacteria
COG0045 LUCA
HOGENOMiHOG000007059
KOiK01903
OMAiLCMDAKF
OrthoDBiPOG091H050Y

Family and domain databases

Gene3Di3.30.1490.20, 1 hit
3.40.50.261, 1 hit
HAMAPiMF_00558 Succ_CoA_beta, 1 hit
InterProiView protein in InterPro
IPR011761 ATP-grasp
IPR013650 ATP-grasp_succ-CoA_synth-type
IPR013815 ATP_grasp_subdomain_1
IPR005811 CoA_ligase
IPR017866 Succ-CoA_synthase_bsu_CS
IPR005809 Succ_CoA_synthase_bsu
IPR016102 Succinyl-CoA_synth-like
PANTHERiPTHR11815 PTHR11815, 1 hit
PfamiView protein in Pfam
PF08442 ATP-grasp_2, 1 hit
PF00549 Ligase_CoA, 1 hit
PIRSFiPIRSF001554 SucCS_beta, 1 hit
SUPFAMiSSF52210 SSF52210, 1 hit
TIGRFAMsiTIGR01016 sucCoAbeta, 1 hit
PROSITEiView protein in PROSITE
PS50975 ATP_GRASP, 1 hit
PS01217 SUCCINYL_COA_LIG_3, 1 hit

Sequencei

Sequence statusi: Complete.

B9JTS8-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MNIHEYQAKA LLKSFGAPVA EGVAIFSADE AEAAAKQLPG PLYVVKSQIH
60 70 80 90 100
AGGRGKGKFK ELGPDAKGGV RLAFSIDEVK SHVAEMLGNT LVTNQTGPAG
110 120 130 140 150
KQVNRLYIED GADIERELYL SLLVDRAVGQ VAFVVSTEGG MDIETVAHDT
160 170 180 190 200
PEKIISVAID PEAGVTAANL EALTAALLLE GEAKADAEKL FPILYKAFVE
210 220 230 240 250
KDMALLEVNP LIVMKNGRMR VLDAKMSFDG NALFRHEDVV ALRDKTEEDA
260 270 280 290 300
KEIEASKYDL AYVALDGNIG CMVNGAGLAM ATMDIIKLYG AEPANFLDVG
310 320 330 340 350
GGATKEKVTA AFKIITADPA VKGILVNIFG GIMKCDVIAE GVLAAVKDVG
360 370 380 390
LTVPLVVRLE GTNVELGKKI INESGLNVIS ADDLDDAAQK IVAAVKAA
Length:398
Mass (Da):41,959
Last modified:March 24, 2009 - v1
Checksum:i277FF30E3FB1AF9A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000633 Genomic DNA Translation: ACM37986.1
RefSeqiWP_015917397.1, NC_011989.1

Genome annotation databases

EnsemblBacteriaiACM37986; ACM37986; Avi_4127
GeneIDi31496902
KEGGiavi:Avi_4127

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000633 Genomic DNA Translation: ACM37986.1
RefSeqiWP_015917397.1, NC_011989.1

3D structure databases

SMRiB9JTS8
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi311402.Avi_4127

Proteomic databases

PRIDEiB9JTS8

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACM37986; ACM37986; Avi_4127
GeneIDi31496902
KEGGiavi:Avi_4127

Phylogenomic databases

eggNOGiENOG4105CMV Bacteria
COG0045 LUCA
HOGENOMiHOG000007059
KOiK01903
OMAiLCMDAKF
OrthoDBiPOG091H050Y

Enzyme and pathway databases

UniPathwayi
UPA00223;UER00999

Family and domain databases

Gene3Di3.30.1490.20, 1 hit
3.40.50.261, 1 hit
HAMAPiMF_00558 Succ_CoA_beta, 1 hit
InterProiView protein in InterPro
IPR011761 ATP-grasp
IPR013650 ATP-grasp_succ-CoA_synth-type
IPR013815 ATP_grasp_subdomain_1
IPR005811 CoA_ligase
IPR017866 Succ-CoA_synthase_bsu_CS
IPR005809 Succ_CoA_synthase_bsu
IPR016102 Succinyl-CoA_synth-like
PANTHERiPTHR11815 PTHR11815, 1 hit
PfamiView protein in Pfam
PF08442 ATP-grasp_2, 1 hit
PF00549 Ligase_CoA, 1 hit
PIRSFiPIRSF001554 SucCS_beta, 1 hit
SUPFAMiSSF52210 SSF52210, 1 hit
TIGRFAMsiTIGR01016 sucCoAbeta, 1 hit
PROSITEiView protein in PROSITE
PS50975 ATP_GRASP, 1 hit
PS01217 SUCCINYL_COA_LIG_3, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiSUCC_AGRVS
AccessioniPrimary (citable) accession number: B9JTS8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 24, 2009
Last modified: October 10, 2018
This is version 55 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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Main funding by: National Institutes of Health

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