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Protein

Succinyl-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

Catalytic activityi

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

Cofactori

Mn2+By similarityNote: Binds 2 manganese ions per subunit.By similarity

Pathwayi: tricarboxylic acid cycle

This protein is involved in step 1 of the subpathway that synthesizes succinate from succinyl-CoA (ligase route).
Proteins known to be involved in this subpathway in this organism are:
  1. Succinyl-CoA ligase [ADP-forming] subunit beta, mitochondrial (At2g20420), Succinyl-CoA ligase [ADP-forming] subunit alpha-2, mitochondrial (At5g23250), Succinyl-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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi193 – 1931Manganese 1By similarity
Metal bindingi231 – 2311Manganese 1By similarity
Metal bindingi231 – 2311Manganese 2By similarity
Metal bindingi233 – 2331Manganese 2By similarity

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, Manganese, 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:
Succinyl-CoA ligase [ADP-forming] subunit beta, mitochondrial (EC:6.2.1.5)
Alternative name(s):
Succinyl-CoA synthetase beta chain
Short name:
SCS-beta
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)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 2626Mitochondrion1 PublicationAdd
BLAST
Chaini27 – 421395Succinyl-CoA ligase [ADP-forming] subunit beta, mitochondrialPRO_0000033362Add
BLAST

Proteomic databases

PaxDbiO82662.
PRIDEiO82662.

Expressioni

Gene expression databases

GenevisibleiO82662. AT.

Interactioni

Subunit structurei

Heterodimer of an alpha and a beta subunit.By similarity

Protein-protein interaction databases

STRINGi3702.AT2G20420.1.

Structurei

3D structure databases

ProteinModelPortaliO82662.
SMRiO82662. Positions 27-419.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini35 – 261227ATP-graspPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 ATP-grasp domain.PROSITE-ProRule annotation

Keywords - Domaini

Transit peptide

Phylogenomic databases

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

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
3.40.50.261. 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_127601.3.
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_127601.3.
UniGeneiAt.21151.

3D structure databases

ProteinModelPortaliO82662.
SMRiO82662. Positions 27-419.
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.
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.
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...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning and characterization of succinyl-CoA-ligase from Arabidopsis thaliana."
    Machuy N., Klein M., Mueller-Roeber B.
    Submitted (SEP-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: cv. C24.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  5. "Proteomic approach to identify novel mitochondrial proteins in Arabidopsis."
    Kruft V., Eubel H., Jaensch L., Werhahn W., Braun H.-P.
    Plant Physiol. 127:1694-1710(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 27-41, SUBCELLULAR LOCATION.
    Tissue: Leaf and Stem.
  6. "Experimental analysis of the Arabidopsis mitochondrial proteome highlights signaling and regulatory components, provides assessment of targeting prediction programs, and indicates plant-specific mitochondrial proteins."
    Heazlewood J.L., Tonti-Filippini J.S., Gout A.M., Day D.A., Whelan J., Millar A.H.
    Plant Cell 16:241-256(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    Strain: cv. Landsberg erecta.

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: February 17, 2016
This is version 128 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

In contrast to the microbial and mammalian enzymes, the plant succinyl-CoA ligase seems to be specific for adenine nucleotides.

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.