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P07014

- SDHB_ECOLI

UniProt

P07014 - SDHB_ECOLI

Protein

Succinate dehydrogenase iron-sulfur subunit

Gene

sdhB

Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 146 (01 Oct 2014)
      Sequence version 1 (01 Apr 1988)
      Previous versions | rss
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    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

    Binds 1 2Fe-2S cluster.
    Binds 1 3Fe-4S cluster.
    Binds 1 4Fe-4S cluster.

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi55 – 551Iron-sulfur 1 (2Fe-2S)
    Metal bindingi60 – 601Iron-sulfur 1 (2Fe-2S)
    Metal bindingi75 – 751Iron-sulfur 1 (2Fe-2S)
    Metal bindingi149 – 1491Iron-sulfur 2 (4Fe-4S)
    Metal bindingi152 – 1521Iron-sulfur 2 (4Fe-4S)
    Metal bindingi155 – 1551Iron-sulfur 2 (4Fe-4S)
    Metal bindingi159 – 1591Iron-sulfur 3 (3Fe-4S)
    Binding sitei164 – 1641Ubiquinone; shared with SdhD subunit1 Publication
    Metal bindingi206 – 2061Iron-sulfur 3 (3Fe-4S)
    Metal bindingi212 – 2121Iron-sulfur 3 (3Fe-4S)
    Metal bindingi216 – 2161Iron-sulfur 2 (4Fe-4S)

    GO - Molecular functioni

    1. 2 iron, 2 sulfur cluster binding Source: EcoCyc
    2. 3 iron, 4 sulfur cluster binding Source: EcoCyc
    3. 4 iron, 4 sulfur cluster binding Source: EcoCyc
    4. electron carrier activity Source: EcoCyc
    5. iron-sulfur cluster binding Source: EcoCyc
    6. metal ion binding Source: UniProtKB-KW
    7. protein binding Source: IntAct
    8. succinate dehydrogenase (ubiquinone) activity Source: UniProtKB-EC

    GO - Biological processi

    1. aerobic respiration Source: EcoCyc
    2. tricarboxylic acid cycle Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Electron transport, Transport, Tricarboxylic acid cycle

    Keywords - Ligandi

    2Fe-2S, 3Fe-4S, 4Fe-4S, Iron, Iron-sulfur, Metal-binding

    Enzyme and pathway databases

    BioCyciEcoCyc:SDH-FE-S.
    ECOL316407:JW0714-MONOMER.
    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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
    ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

    Organism-specific databases

    EcoGeneiEG10932. sdhB.

    Subcellular locationi

    Cell inner membrane 1 Publication; Peripheral membrane protein 1 Publication

    GO - Cellular componenti

    1. plasma membrane Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cell inner membrane, Cell membrane, Membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 238238Succinate dehydrogenase iron-sulfur subunitPRO_0000158688Add
    BLAST

    Proteomic databases

    PaxDbiP07014.
    PRIDEiP07014.

    Expressioni

    Gene expression databases

    GenevestigatoriP07014.

    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

    BioGridi849677. 1 interaction.
    DIPiDIP-10836N.
    IntActiP07014. 8 interactions.
    STRINGi511145.b0724.

    Structurei

    Secondary structure

    1
    238
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi2 – 98
    Turni12 – 143
    Beta strandi19 – 268
    Beta strandi29 – 313
    Helixi35 – 4511
    Beta strandi54 – 607
    Beta strandi64 – 674
    Beta strandi70 – 734
    Helixi74 – 763
    Helixi79 – 813
    Beta strandi89 – 924
    Beta strandi97 – 1015
    Beta strandi103 – 1053
    Helixi108 – 1169
    Beta strandi130 – 1323
    Helixi137 – 1415
    Turni142 – 1487
    Helixi156 – 1583
    Helixi160 – 1645
    Turni166 – 1683
    Helixi172 – 18211
    Helixi190 – 1956
    Turni200 – 2056
    Helixi211 – 2155
    Helixi222 – 23716

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    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. Positions 1-238.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP07014.

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini8 – 97902Fe-2S ferredoxin-typePROSITE-ProRule annotationAdd
    BLAST
    Domaini139 – 169314Fe-4S ferredoxin-typePROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Contains 1 2Fe-2S ferredoxin-type domain.PROSITE-ProRule annotation
    Contains 1 4Fe-4S ferredoxin-type domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG0479.
    HOGENOMiHOG000160590.
    KOiK00240.
    OMAiQYEKIRP.
    OrthoDBiEOG6CK7MG.
    PhylomeDBiP07014.

    Family and domain databases

    Gene3Di3.10.20.30. 1 hit.
    InterProiIPR001041. 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.
    [Graphical view]
    PfamiPF13085. Fer2_3. 1 hit.
    [Graphical view]
    SUPFAMiSSF46548. SSF46548. 1 hit.
    SSF54292. SSF54292. 1 hit.
    TIGRFAMsiTIGR00384. dhsB. 1 hit.
    PROSITEiPS51085. 2FE2S_FER_2. 1 hit.
    PS00198. 4FE4S_FER_1. 1 hit.
    PS51379. 4FE4S_FER_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P07014-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRLEFSIYRY NPDVDDAPRM QDYTLEADEG RDMMLLDALI QLKEKDPSLS    50
    FRRSCREGVC GSDGLNMNGK NGLACITPIS ALNQPGKKIV IRPLPGLPVI 100
    RDLVVDMGQF YAQYEKIKPY LLNNGQNPPA REHLQMPEQR EKLDGLYECI 150
    LCACCSTSCP SFWWNPDKFI GPAGLLAAYR FLIDSRDTET DSRLDGLSDA 200
    FSVFRCHSIM NCVSVCPKGL NPTRAIGHIK SMLLQRNA 238
    Length:238
    Mass (Da):26,770
    Last modified:April 1, 1988 - v1
    Checksum:i226F60C55F5AC35A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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.
    YP_489004.1. NC_007779.1.

    Genome annotation databases

    EnsemblBacteriaiAAC73818; AAC73818; b0724.
    BAA35391; BAA35391; BAA35391.
    GeneIDi12932956.
    945300.
    KEGGiecj:Y75_p0704.
    eco:b0724.
    PATRICi32116643. VBIEscCol129921_0754.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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 .
    PIRi A28837. DEECSI.
    RefSeqi NP_415252.1. NC_000913.3.
    YP_489004.1. NC_007779.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1NEK X-ray 2.60 B 1-238 [» ]
    1NEN X-ray 2.90 B 1-238 [» ]
    2ACZ X-ray 3.10 B 1-238 [» ]
    2AD0 model - B 1-238 [» ]
    2WDQ X-ray 2.40 B/F/J 1-238 [» ]
    2WDR X-ray 3.20 B/F/J 1-238 [» ]
    2WDV X-ray 3.20 B/F/J 1-238 [» ]
    2WP9 X-ray 2.70 B/F/J 1-238 [» ]
    2WS3 X-ray 3.20 B/F/J 1-238 [» ]
    2WU2 X-ray 2.50 B/F/J 1-238 [» ]
    2WU5 X-ray 2.80 B/F/J 1-238 [» ]
    ProteinModelPortali P07014.
    SMRi P07014. Positions 1-238.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 849677. 1 interaction.
    DIPi DIP-10836N.
    IntActi P07014. 8 interactions.
    STRINGi 511145.b0724.

    Proteomic databases

    PaxDbi P07014.
    PRIDEi P07014.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAC73818 ; AAC73818 ; b0724 .
    BAA35391 ; BAA35391 ; BAA35391 .
    GeneIDi 12932956.
    945300.
    KEGGi ecj:Y75_p0704.
    eco:b0724.
    PATRICi 32116643. VBIEscCol129921_0754.

    Organism-specific databases

    EchoBASEi EB0925.
    EcoGenei EG10932. sdhB.

    Phylogenomic databases

    eggNOGi COG0479.
    HOGENOMi HOG000160590.
    KOi K00240.
    OMAi QYEKIRP.
    OrthoDBi EOG6CK7MG.
    PhylomeDBi P07014.

    Enzyme and pathway databases

    UniPathwayi UPA00223 ; UER01005 .
    BioCyci EcoCyc:SDH-FE-S.
    ECOL316407:JW0714-MONOMER.
    MetaCyc:SDH-FE-S.

    Miscellaneous databases

    EvolutionaryTracei P07014.
    PROi P07014.

    Gene expression databases

    Genevestigatori P07014.

    Family and domain databases

    Gene3Di 3.10.20.30. 1 hit.
    InterProi 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.
    [Graphical view ]
    Pfami PF13085. Fer2_3. 1 hit.
    [Graphical view ]
    SUPFAMi SSF46548. SSF46548. 1 hit.
    SSF54292. SSF54292. 1 hit.
    TIGRFAMsi TIGR00384. dhsB. 1 hit.
    PROSITEi PS51085. 2FE2S_FER_2. 1 hit.
    PS00198. 4FE4S_FER_1. 1 hit.
    PS51379. 4FE4S_FER_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Nucleotide sequence encoding the iron-sulphur protein subunit of the succinate dehydrogenase of Escherichia coli."
      Darlison M.G., Guest J.R.
      Biochem. J. 223:507-517(1984) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: K12.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
    3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: K12 / MG1655 / ATCC 47076.
    4. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
      Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
      Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
    5. "Nucleotide sequence of the sucA gene encoding the 2-oxoglutarate dehydrogenase of Escherichia coli K12."
      Darlison M.G., Spencer M.E., Guest J.R.
      Eur. J. Biochem. 141:351-359(1984) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 231-238.
    6. "Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12."
      Link A.J., Robison K., Church G.M.
      Electrophoresis 18:1259-1313(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 1-11.
      Strain: K12 / EMG2.
    7. Cited for: SUBUNIT, SUBCELLULAR LOCATION.
      Strain: BL21-DE3.
    8. "Architecture of succinate dehydrogenase and reactive oxygen species generation."
      Yankovskaya V., Horsefield R., Toernroth S., Luna-Chavez C., Miyoshi H., Leger C., Byrne B., Cecchini G., Iwata S.
      Science 299:700-704(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS) IN COMPLEX WITH IRON-SULFUR CLUSTERS AND UBIQUINONE, COFACTOR, SUBUNIT.
    9. "Structural and computational analysis of the quinone-binding site of complex II (succinate-ubiquinone oxidoreductase): a mechanism of electron transfer and proton conduction during ubiquinone reduction."
      Horsefield R., Yankovskaya V., Sexton G., Whittingham W., Shiomi K., Omura S., Byrne B., Cecchini G., Iwata S.
      J. Biol. Chem. 281:7309-7316(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) IN COMPLEX WITH IRON-SULFUR CLUSTERS, COFACTOR, SUBUNIT.
    10. "Structure of Escherichia coli succinate:quinone oxidoreductase with an occupied and empty quinone-binding site."
      Ruprecht J., Yankovskaya V., Maklashina E., Iwata S., Cecchini G.
      J. Biol. Chem. 284:29836-29846(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) IN COMPLEX WITH IRON-SULFUR CLUSTERS, COFACTOR, SUBUNIT.

    Entry informationi

    Entry nameiSDHB_ECOLI
    AccessioniPrimary (citable) accession number: P07014
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 1, 1988
    Last sequence update: April 1, 1988
    Last modified: October 1, 2014
    This is version 146 of the entry and version 1 of the sequence. [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

    External Data

    Dasty 3