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Protein

Succinate dehydrogenase iron-sulfur subunit

Gene

sdhB

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Two distinct, membrane-bound, FAD-containing enzymes are responsible for the catalysis of fumarate and succinate interconversion; the fumarate reductase is used in anaerobic growth, and the succinate dehydrogenase is used in aerobic growth.

Catalytic activityi

Succinate + a quinone = fumarate + a quinol.

Cofactori

Protein has several cofactor binding sites:

Pathwayi: tricarboxylic acid cycle

This protein is involved in step 1 of the subpathway that synthesizes fumarate from succinate (bacterial route).
Proteins known to be involved in this subpathway in this organism are:
  1. Succinate dehydrogenase flavoprotein subunit (sdhA), Succinate dehydrogenase iron-sulfur subunit (sdhB)
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 fumarate from succinate (bacterial route), the pathway tricarboxylic acid cycle and in Carbohydrate metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi55Iron-sulfur 1 (2Fe-2S)1
Metal bindingi60Iron-sulfur 1 (2Fe-2S)1
Metal bindingi75Iron-sulfur 1 (2Fe-2S)1
Metal bindingi149Iron-sulfur 2 (4Fe-4S)1
Metal bindingi152Iron-sulfur 2 (4Fe-4S)1
Metal bindingi155Iron-sulfur 2 (4Fe-4S)1
Metal bindingi159Iron-sulfur 3 (3Fe-4S)1
Binding sitei164Ubiquinone; shared with SdhD subunit1 Publication1
Metal bindingi206Iron-sulfur 3 (3Fe-4S)1
Metal bindingi212Iron-sulfur 3 (3Fe-4S)1
Metal bindingi216Iron-sulfur 2 (4Fe-4S)1

GO - Molecular functioni

  • 2 iron, 2 sulfur cluster binding Source: EcoCyc
  • 3 iron, 4 sulfur cluster binding Source: EcoCyc
  • 4 iron, 4 sulfur cluster binding Source: EcoCyc
  • electron carrier activity Source: EcoCyc
  • iron-sulfur cluster binding Source: EcoCyc
  • metal ion binding Source: UniProtKB-KW
  • succinate dehydrogenase (ubiquinone) activity Source: UniProtKB-EC

GO - Biological processi

  • aerobic respiration Source: EcoCyc
  • respiratory electron transport chain Source: GO_Central
  • tricarboxylic acid cycle Source: UniProtKB-UniPathway

Keywordsi

Molecular functionOxidoreductase
Biological processElectron transport, Transport, Tricarboxylic acid cycle
Ligand2Fe-2S, 3Fe-4S, 4Fe-4S, Iron, Iron-sulfur, Metal-binding

Enzyme and pathway databases

BioCyciEcoCyc:SDH-FE-S.
MetaCyc:SDH-FE-S.
UniPathwayiUPA00223; UER01005.

Names & Taxonomyi

Protein namesi
Recommended name:
Succinate dehydrogenase iron-sulfur subunit (EC:1.3.5.1)
Gene namesi
Name:sdhB
Ordered Locus Names:b0724, JW0714
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10932. sdhB.

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, Membrane

Pathology & Biotechi

Chemistry databases

DrugBankiDB04631. Atpenin A5.
DB08690. UBIQUINONE-2.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001586881 – 238Succinate dehydrogenase iron-sulfur subunitAdd BLAST238

Proteomic databases

EPDiP07014.
PaxDbiP07014.
PRIDEiP07014.

Interactioni

Subunit structurei

Part of an enzyme complex containing four subunits: a flavoprotein, an iron-sulfur, cytochrome b-556, and a hydrophobic anchor protein. The complex forms trimers.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
sdhAP0AC412EBI-1035514,EBI-371263

Protein-protein interaction databases

BioGridi4261950. 14 interactors.
849677. 1 interactor.
DIPiDIP-10836N.
IntActiP07014. 8 interactors.
STRINGi511145.b0724.

Structurei

Secondary structure

1238
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 9Combined sources8
Turni12 – 14Combined sources3
Beta strandi19 – 26Combined sources8
Beta strandi29 – 31Combined sources3
Helixi35 – 45Combined sources11
Beta strandi54 – 60Combined sources7
Beta strandi64 – 67Combined sources4
Beta strandi70 – 73Combined sources4
Helixi74 – 76Combined sources3
Helixi79 – 81Combined sources3
Beta strandi89 – 92Combined sources4
Beta strandi97 – 101Combined sources5
Beta strandi103 – 105Combined sources3
Helixi108 – 116Combined sources9
Beta strandi130 – 132Combined sources3
Helixi137 – 141Combined sources5
Turni142 – 148Combined sources7
Helixi156 – 158Combined sources3
Helixi160 – 164Combined sources5
Turni166 – 168Combined sources3
Helixi172 – 182Combined sources11
Helixi190 – 195Combined sources6
Turni200 – 205Combined sources6
Helixi211 – 215Combined sources5
Helixi222 – 237Combined sources16

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1NEKX-ray2.60B1-238[»]
1NENX-ray2.90B1-238[»]
2ACZX-ray3.10B1-238[»]
2AD0model-B1-238[»]
2WDQX-ray2.40B/F/J1-238[»]
2WDRX-ray3.20B/F/J1-238[»]
2WDVX-ray3.20B/F/J1-238[»]
2WP9X-ray2.70B/F/J1-238[»]
2WS3X-ray3.20B/F/J1-238[»]
2WU2X-ray2.50B/F/J1-238[»]
2WU5X-ray2.80B/F/J1-238[»]
ProteinModelPortaliP07014.
SMRiP07014.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP07014.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini8 – 972Fe-2S ferredoxin-typePROSITE-ProRule annotationAdd BLAST90
Domaini139 – 1694Fe-4S ferredoxin-typePROSITE-ProRule annotationAdd BLAST31

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4105E33. Bacteria.
COG0479. LUCA.
HOGENOMiHOG000160590.
InParanoidiP07014.
KOiK00240.
PhylomeDBiP07014.

Family and domain databases

CDDicd00207. fer2. 1 hit.
Gene3Di3.10.20.30. 1 hit.
InterProiView protein in InterPro
IPR001041. 2Fe-2S_ferredoxin-type.
IPR017896. 4Fe4S_Fe-S-bd.
IPR017900. 4Fe4S_Fe_S_CS.
IPR012675. Beta-grasp_dom.
IPR009051. Helical_ferredxn.
IPR004489. Succ_DH/fum_Rdtase_Fe-S.
IPR025192. Succ_DH/fum_Rdtase_N.
PfamiView protein in Pfam
PF13085. Fer2_3. 1 hit.
SUPFAMiSSF46548. SSF46548. 1 hit.
SSF54292. SSF54292. 1 hit.
TIGRFAMsiTIGR00384. dhsB. 1 hit.
PROSITEiView protein in PROSITE
PS51085. 2FE2S_FER_2. 1 hit.
PS00198. 4FE4S_FER_1. 1 hit.
PS51379. 4FE4S_FER_2. 1 hit.

Sequencei

Sequence statusi: Complete.

P07014-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRLEFSIYRY NPDVDDAPRM QDYTLEADEG RDMMLLDALI QLKEKDPSLS
60 70 80 90 100
FRRSCREGVC GSDGLNMNGK NGLACITPIS ALNQPGKKIV IRPLPGLPVI
110 120 130 140 150
RDLVVDMGQF YAQYEKIKPY LLNNGQNPPA REHLQMPEQR EKLDGLYECI
160 170 180 190 200
LCACCSTSCP SFWWNPDKFI GPAGLLAAYR FLIDSRDTET DSRLDGLSDA
210 220 230
FSVFRCHSIM NCVSVCPKGL NPTRAIGHIK SMLLQRNA
Length:238
Mass (Da):26,770
Last modified:April 1, 1988 - v1
Checksum:i226F60C55F5AC35A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J01619 Genomic DNA. Translation: AAA23896.1.
X01070 Genomic DNA. Translation: CAA25534.1.
U00096 Genomic DNA. Translation: AAC73818.1.
AP009048 Genomic DNA. Translation: BAA35391.1.
X00661 Genomic DNA. Translation: CAA25279.1.
PIRiA28837. DEECSI.
RefSeqiNP_415252.1. NC_000913.3.
WP_001235254.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73818; AAC73818; b0724.
BAA35391; BAA35391; BAA35391.
GeneIDi945300.
KEGGiecj:JW0714.
eco:b0724.
PATRICifig|1411691.4.peg.1548.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J01619 Genomic DNA. Translation: AAA23896.1.
X01070 Genomic DNA. Translation: CAA25534.1.
U00096 Genomic DNA. Translation: AAC73818.1.
AP009048 Genomic DNA. Translation: BAA35391.1.
X00661 Genomic DNA. Translation: CAA25279.1.
PIRiA28837. DEECSI.
RefSeqiNP_415252.1. NC_000913.3.
WP_001235254.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1NEKX-ray2.60B1-238[»]
1NENX-ray2.90B1-238[»]
2ACZX-ray3.10B1-238[»]
2AD0model-B1-238[»]
2WDQX-ray2.40B/F/J1-238[»]
2WDRX-ray3.20B/F/J1-238[»]
2WDVX-ray3.20B/F/J1-238[»]
2WP9X-ray2.70B/F/J1-238[»]
2WS3X-ray3.20B/F/J1-238[»]
2WU2X-ray2.50B/F/J1-238[»]
2WU5X-ray2.80B/F/J1-238[»]
ProteinModelPortaliP07014.
SMRiP07014.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261950. 14 interactors.
849677. 1 interactor.
DIPiDIP-10836N.
IntActiP07014. 8 interactors.
STRINGi511145.b0724.

Chemistry databases

DrugBankiDB04631. Atpenin A5.
DB08690. UBIQUINONE-2.

Proteomic databases

EPDiP07014.
PaxDbiP07014.
PRIDEiP07014.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73818; AAC73818; b0724.
BAA35391; BAA35391; BAA35391.
GeneIDi945300.
KEGGiecj:JW0714.
eco:b0724.
PATRICifig|1411691.4.peg.1548.

Organism-specific databases

EchoBASEiEB0925.
EcoGeneiEG10932. sdhB.

Phylogenomic databases

eggNOGiENOG4105E33. Bacteria.
COG0479. LUCA.
HOGENOMiHOG000160590.
InParanoidiP07014.
KOiK00240.
PhylomeDBiP07014.

Enzyme and pathway databases

UniPathwayiUPA00223; UER01005.
BioCyciEcoCyc:SDH-FE-S.
MetaCyc:SDH-FE-S.

Miscellaneous databases

EvolutionaryTraceiP07014.
PROiPR:P07014.

Family and domain databases

CDDicd00207. fer2. 1 hit.
Gene3Di3.10.20.30. 1 hit.
InterProiView protein in InterPro
IPR001041. 2Fe-2S_ferredoxin-type.
IPR017896. 4Fe4S_Fe-S-bd.
IPR017900. 4Fe4S_Fe_S_CS.
IPR012675. Beta-grasp_dom.
IPR009051. Helical_ferredxn.
IPR004489. Succ_DH/fum_Rdtase_Fe-S.
IPR025192. Succ_DH/fum_Rdtase_N.
PfamiView protein in Pfam
PF13085. Fer2_3. 1 hit.
SUPFAMiSSF46548. SSF46548. 1 hit.
SSF54292. SSF54292. 1 hit.
TIGRFAMsiTIGR00384. dhsB. 1 hit.
PROSITEiView protein in PROSITE
PS51085. 2FE2S_FER_2. 1 hit.
PS00198. 4FE4S_FER_1. 1 hit.
PS51379. 4FE4S_FER_2. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiSDHB_ECOLI
AccessioniPrimary (citable) accession number: P07014
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 1, 1988
Last sequence update: April 1, 1988
Last modified: June 7, 2017
This is version 162 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

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.