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Protein

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

Gene

At2g20420

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of ATP 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, mitochondrial (At2g20420), Succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial (At5g23250), Succinate--CoA ligase [ADP-forming] subunit alpha-1, mitochondrial (At5g08300)
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 sitei74ATPUniRule annotation1
Binding sitei141ATPUniRule annotation1
Metal bindingi233MagnesiumUniRule annotation1
Metal bindingi247MagnesiumUniRule annotation1
Binding sitei298Substrate; shared with subunit alphaUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi81 – 83ATPUniRule annotation3

GO - Molecular functioni

  • ATP binding Source: TAIR
  • copper ion binding Source: TAIR
  • succinate-CoA ligase (ADP-forming) activity Source: UniProtKB-EC

GO - Biological processi

  • response to cadmium ion Source: TAIR
  • tricarboxylic acid cycle Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Tricarboxylic acid cycle

Keywords - Ligandi

ATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciARA:AT2G20420-MONOMER.
ReactomeiR-ATH-71403. Citric acid cycle (TCA cycle).
UniPathwayiUPA00223; UER00999.

Names & Taxonomyi

Protein namesi
Recommended name:
Succinate--CoA ligase [ADP-forming] subunit beta, mitochondrialUniRule annotation (EC:6.2.1.5UniRule annotation)
Alternative name(s):
Succinyl-CoA synthetase beta chainUniRule annotation
Short name:
SCS-betaUniRule annotation
Gene namesi
Ordered Locus Names:At2g20420
ORF Names:F11A3.3
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 2

Organism-specific databases

TAIRiAT2G20420.

Subcellular locationi

GO - Cellular componenti

  • mitochondrion Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 26Mitochondrion1 PublicationAdd BLAST26
ChainiPRO_000003336227 – 421Succinate--CoA ligase [ADP-forming] subunit beta, mitochondrialAdd BLAST395

Proteomic databases

PaxDbiO82662.
PRIDEiO82662.

Expressioni

Gene expression databases

GenevisibleiO82662. AT.

Interactioni

Subunit structurei

Heterodimer of an alpha and a beta subunit.UniRule annotation

Protein-protein interaction databases

STRINGi3702.AT2G20420.1.

Structurei

3D structure databases

ProteinModelPortaliO82662.
SMRiO82662.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini35 – 278ATP-graspUniRule annotationAdd BLAST244

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni355 – 357Substrate binding; shared with subunit alphaUniRule annotation3

Sequence similaritiesi

Belongs to the succinate/malate CoA ligase beta subunit family.UniRule annotation
Contains 1 ATP-grasp domain.UniRule annotation

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG2799. Eukaryota.
COG0045. LUCA.
HOGENOMiHOG000007059.
InParanoidiO82662.
KOiK01900.
OMAiDRNDSIE.
OrthoDBiEOG09360AMS.
PhylomeDBiO82662.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
3.40.50.261. 1 hit.
HAMAPiMF_00558. Succ_CoA_beta. 1 hit.
InterProiIPR011761. ATP-grasp.
IPR013650. ATP-grasp_succ-CoA_synth-type.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
IPR005811. CoA_ligase.
IPR017866. Succ-CoA_synthase_bsu_CS.
IPR005809. Succ_CoA_synthase_bsu.
IPR016102. Succinyl-CoA_synth-like.
[Graphical view]
PANTHERiPTHR11815. PTHR11815. 1 hit.
PfamiPF08442. ATP-grasp_2. 1 hit.
PF00549. Ligase_CoA. 1 hit.
[Graphical view]
PIRSFiPIRSF001554. SucCS_beta. 1 hit.
SUPFAMiSSF52210. SSF52210. 1 hit.
TIGRFAMsiTIGR01016. sucCoAbeta. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS01217. SUCCINYL_COA_LIG_3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

O82662-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRGLVNKLVS RSLSISGKWQ NQQLRRLNIH EYQGAELMGK YGVNVPKGVA
60 70 80 90 100
ASSLEEVKKA IQDVFPNESE LVVKSQILAG GRGLGTFKSG LKGGVHIVKR
110 120 130 140 150
DEAEEIAGKM LGQVLVTKQT GPQGKVVSKV YLCEKLSLVN EMYFSIILDR
160 170 180 190 200
KSAGPLIIAC KKGGTSIEDL AEKFPDMIIK VPIDVFAGIT DEDAAKVVDG
210 220 230 240 250
LAPKAADRKD SIEQVKKLYE LFRKTDCTML EINPLAETST NQLVAADAKL
260 270 280 290 300
NFDDNAAFRQ KEVFAMRDPT QEDPREVAAA KVDLNYIGLD GEIGCMVNGA
310 320 330 340 350
GLAMATMDII KLHGGTPANF LDVGGNASEH QVVEAFKILT SDDKVKAILV
360 370 380 390 400
NIFGGIMKCD VIASGIVNAA KEVALKVPVV VRLEGTNVEQ GKRILKESGM
410 420
KLITADDLDD AAEKAVKALA H
Length:421
Mass (Da):45,346
Last modified:November 1, 1998 - v1
Checksum:i44F7491FA9029EC7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ001808 mRNA. Translation: CAA05024.1.
AC006569 Genomic DNA. Translation: AAM15283.1.
CP002685 Genomic DNA. Translation: AEC07005.1.
AY099707 mRNA. Translation: AAM20558.1.
AY128889 mRNA. Translation: AAM91289.1.
PIRiT51809.
RefSeqiNP_179632.1. NM_127601.4.
UniGeneiAt.21151.

Genome annotation databases

EnsemblPlantsiAT2G20420.1; AT2G20420.1; AT2G20420.
GeneIDi816561.
GrameneiAT2G20420.1; AT2G20420.1; AT2G20420.
KEGGiath:AT2G20420.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ001808 mRNA. Translation: CAA05024.1.
AC006569 Genomic DNA. Translation: AAM15283.1.
CP002685 Genomic DNA. Translation: AEC07005.1.
AY099707 mRNA. Translation: AAM20558.1.
AY128889 mRNA. Translation: AAM91289.1.
PIRiT51809.
RefSeqiNP_179632.1. NM_127601.4.
UniGeneiAt.21151.

3D structure databases

ProteinModelPortaliO82662.
SMRiO82662.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT2G20420.1.

Proteomic databases

PaxDbiO82662.
PRIDEiO82662.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT2G20420.1; AT2G20420.1; AT2G20420.
GeneIDi816561.
GrameneiAT2G20420.1; AT2G20420.1; AT2G20420.
KEGGiath:AT2G20420.

Organism-specific databases

TAIRiAT2G20420.

Phylogenomic databases

eggNOGiKOG2799. Eukaryota.
COG0045. LUCA.
HOGENOMiHOG000007059.
InParanoidiO82662.
KOiK01900.
OMAiDRNDSIE.
OrthoDBiEOG09360AMS.
PhylomeDBiO82662.

Enzyme and pathway databases

UniPathwayiUPA00223; UER00999.
BioCyciARA:AT2G20420-MONOMER.
ReactomeiR-ATH-71403. Citric acid cycle (TCA cycle).

Miscellaneous databases

PROiO82662.

Gene expression databases

GenevisibleiO82662. AT.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
3.40.50.261. 1 hit.
HAMAPiMF_00558. Succ_CoA_beta. 1 hit.
InterProiIPR011761. ATP-grasp.
IPR013650. ATP-grasp_succ-CoA_synth-type.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
IPR005811. CoA_ligase.
IPR017866. Succ-CoA_synthase_bsu_CS.
IPR005809. Succ_CoA_synthase_bsu.
IPR016102. Succinyl-CoA_synth-like.
[Graphical view]
PANTHERiPTHR11815. PTHR11815. 1 hit.
PfamiPF08442. ATP-grasp_2. 1 hit.
PF00549. Ligase_CoA. 1 hit.
[Graphical view]
PIRSFiPIRSF001554. SucCS_beta. 1 hit.
SUPFAMiSSF52210. SSF52210. 1 hit.
TIGRFAMsiTIGR01016. sucCoAbeta. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS01217. SUCCINYL_COA_LIG_3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSUCB_ARATH
AccessioniPrimary (citable) accession number: O82662
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 27, 2002
Last sequence update: November 1, 1998
Last modified: November 30, 2016
This is version 132 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.