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P21801

- SDHB_YEAST

UniProt

P21801 - SDHB_YEAST

Protein

Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial

Gene

SDH2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 148 (01 Oct 2014)
      Sequence version 1 (01 May 1991)
      Previous versions | rss
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    Functioni

    Subunit of succinate dehydrogenase (SDH) that is involved in complex II of the mitochondrial electron transport chain and is responsible for transferring electrons from succinate to ubiquinone (coenzyme Q). SDH1 and SDH2 form the catalytic dimer. Electrons flow from succinate to the FAD bound to SDH1, and sequentially through the iron-sulfur clusters bound to SDH2 and enter the membrane dimer formed by SDH3 and SDH4.

    Catalytic activityi

    Succinate + a quinone = fumarate + a quinol.

    Cofactori

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

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi87 – 871Iron-sulfur 1 (2Fe-2S)By similarity
    Metal bindingi92 – 921Iron-sulfur 1 (2Fe-2S)By similarity
    Metal bindingi95 – 951Iron-sulfur 1 (2Fe-2S)By similarity
    Metal bindingi107 – 1071Iron-sulfur 1 (2Fe-2S)By similarity
    Metal bindingi179 – 1791Iron-sulfur 2 (4Fe-4S)By similarity
    Metal bindingi182 – 1821Iron-sulfur 2 (4Fe-4S)By similarity
    Metal bindingi185 – 1851Iron-sulfur 2 (4Fe-4S)By similarity
    Metal bindingi189 – 1891Iron-sulfur 3 (3Fe-4S)By similarity
    Binding sitei194 – 1941Ubiquinone; shared with DHSDBy similarity
    Metal bindingi236 – 2361Iron-sulfur 3 (3Fe-4S)By similarity
    Metal bindingi242 – 2421Iron-sulfur 3 (3Fe-4S)By similarity
    Metal bindingi246 – 2461Iron-sulfur 2 (4Fe-4S)By similarity

    GO - Molecular functioni

    1. 2 iron, 2 sulfur cluster binding Source: UniProtKB-KW
    2. 3 iron, 4 sulfur cluster binding Source: UniProtKB-KW
    3. 4 iron, 4 sulfur cluster binding Source: UniProtKB-KW
    4. electron carrier activity Source: InterPro
    5. metal ion binding Source: UniProtKB-KW
    6. succinate dehydrogenase (ubiquinone) activity Source: SGD

    GO - Biological processi

    1. cellular respiration Source: SGD
    2. mitochondrial electron transport, succinate to ubiquinone Source: SGD
    3. tricarboxylic acid cycle Source: SGD

    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

    BioCyciMetaCyc:YLL041C-MONOMER.
    YEAST:YLL041C-MONOMER.
    UniPathwayiUPA00223; UER01006.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial (EC:1.3.5.1)
    Alternative name(s):
    Iron-sulfur subunit of complex II
    Short name:
    Ip
    Gene namesi
    Name:SDH2
    Synonyms:SDH, SDHB
    Ordered Locus Names:YLL041C
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome XII

    Organism-specific databases

    CYGDiYLL041c.
    SGDiS000003964. SDH2.

    Subcellular locationi

    GO - Cellular componenti

    1. mitochondrial membrane Source: SGD
    2. mitochondrial respiratory chain complex II Source: SGD

    Keywords - Cellular componenti

    Membrane, Mitochondrion, Mitochondrion inner membrane

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi260 – 2667Missing: Abolishes SDH activity and complex assembly. 1 Publication
    Mutagenesisi260 – 2601K → T: Abolishes SDH activity. No effect on complex assembly and stability; when associated with T-261. 1 Publication
    Mutagenesisi261 – 2611K → T: Abolishes SDH activity. No effect on complex assembly and stability; when associated with T-260. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – ?2020MitochondrionAdd
    BLAST
    Chaini?21 – 266246Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrialPRO_0000010353Add
    BLAST

    Proteomic databases

    MaxQBiP21801.
    PaxDbiP21801.
    PeptideAtlasiP21801.

    Expressioni

    Gene expression databases

    GenevestigatoriP21801.

    Interactioni

    Subunit structurei

    Component of complex II composed of four subunits: a flavoprotein (FP), an iron-sulfur protein (IP), and a cytochrome b composed of a large and a small subunit.By similarity

    Protein-protein interaction databases

    BioGridi31272. 50 interactions.
    DIPiDIP-5856N.
    IntActiP21801. 5 interactions.
    MINTiMINT-695166.
    STRINGi4932.YLL041C.

    Structurei

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1ORZmodel-B21-266[»]
    1PB4model-B21-266[»]
    ProteinModelPortaliP21801.
    SMRiP21801. Positions 30-264.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini36 – 127922Fe-2S ferredoxin-typePROSITE-ProRule annotationAdd
    BLAST
    Domaini169 – 199314Fe-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

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG0479.
    GeneTreeiENSGT00390000013558.
    HOGENOMiHOG000160590.
    KOiK00235.
    OMAiIMNCSRT.
    OrthoDBiEOG7X9GJ0.

    Family and domain databases

    Gene3Di3.10.20.30. 1 hit.
    InterProiIPR001041. 2Fe-2S_ferredoxin-type.
    IPR006058. 2Fe2S_fd_BS.
    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.
    PROSITEiPS00197. 2FE2S_FER_1. 1 hit.
    PS51085. 2FE2S_FER_2. 1 hit.
    PS00198. 4FE4S_FER_1. 1 hit.
    PS51379. 4FE4S_FER_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    P21801-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLNVLLRRKA FCLVTKKGMA TATTAAATHT PRLKTFKVYR WNPDEPSAKP    50
    HLQSYQVDLN DCGPMVLDAL LKIKDEQDST LTFRRSCREG ICGSCAMNIG 100
    GRNTLACICK IDQNESKQLK IYPLPHMFIV KDLVPDLTNF YQQYKSIQPY 150
    LQRSSFPKDG TEVLQSIEDR KKLDGLYECI LCACCSTSCP SYWWNQEQYL 200
    GPAVLMQAYR WLIDSRDQAT KTRKAMLNNS MSLYRCHTIM NCTRTCPKGL 250
    NPGLAIAEIK KSLAFA 266
    Length:266
    Mass (Da):30,231
    Last modified:May 1, 1991 - v1
    Checksum:iC14170F3670F6930
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    J05487 Genomic DNA. Translation: AAA35021.1.
    Z73146 Genomic DNA. Translation: CAA97492.1.
    AY558189 Genomic DNA. Translation: AAS56515.1.
    BK006945 Genomic DNA. Translation: DAA09281.1.
    PIRiA35435. RDBYIS.
    RefSeqiNP_013059.1. NM_001181861.1.

    Genome annotation databases

    EnsemblFungiiYLL041C; YLL041C; YLL041C.
    GeneIDi850685.
    KEGGisce:YLL041C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    J05487 Genomic DNA. Translation: AAA35021.1 .
    Z73146 Genomic DNA. Translation: CAA97492.1 .
    AY558189 Genomic DNA. Translation: AAS56515.1 .
    BK006945 Genomic DNA. Translation: DAA09281.1 .
    PIRi A35435. RDBYIS.
    RefSeqi NP_013059.1. NM_001181861.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1ORZ model - B 21-266 [» ]
    1PB4 model - B 21-266 [» ]
    ProteinModelPortali P21801.
    SMRi P21801. Positions 30-264.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 31272. 50 interactions.
    DIPi DIP-5856N.
    IntActi P21801. 5 interactions.
    MINTi MINT-695166.
    STRINGi 4932.YLL041C.

    Proteomic databases

    MaxQBi P21801.
    PaxDbi P21801.
    PeptideAtlasi P21801.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YLL041C ; YLL041C ; YLL041C .
    GeneIDi 850685.
    KEGGi sce:YLL041C.

    Organism-specific databases

    CYGDi YLL041c.
    SGDi S000003964. SDH2.

    Phylogenomic databases

    eggNOGi COG0479.
    GeneTreei ENSGT00390000013558.
    HOGENOMi HOG000160590.
    KOi K00235.
    OMAi IMNCSRT.
    OrthoDBi EOG7X9GJ0.

    Enzyme and pathway databases

    UniPathwayi UPA00223 ; UER01006 .
    BioCyci MetaCyc:YLL041C-MONOMER.
    YEAST:YLL041C-MONOMER.

    Miscellaneous databases

    NextBioi 966692.
    PROi P21801.

    Gene expression databases

    Genevestigatori P21801.

    Family and domain databases

    Gene3Di 3.10.20.30. 1 hit.
    InterProi IPR001041. 2Fe-2S_ferredoxin-type.
    IPR006058. 2Fe2S_fd_BS.
    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 PS00197. 2FE2S_FER_1. 1 hit.
    PS51085. 2FE2S_FER_2. 1 hit.
    PS00198. 4FE4S_FER_1. 1 hit.
    PS51379. 4FE4S_FER_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Cloning and characterization of the iron-sulfur subunit gene of succinate dehydrogenase from Saccharomyces cerevisiae."
      Lombardo A., Carine K., Scheffler I.E.
      J. Biol. Chem. 265:10419-10423(1990) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XII."
      Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., Heuss-Neitzel D., Hilbert H.
      , Hilger F., Kleine K., Koetter P., Louis E.J., Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., Zollner A., Hani J., Hoheisel J.D.
      Nature 387:87-90(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    5. "Use of the DNA polymerase chain reaction for homology probing: isolation of partial cDNA or genomic clones encoding the iron-sulfur protein of succinate dehydrogenase from several species."
      Gould S.J., Subramani S., Scheffler I.E.
      Proc. Natl. Acad. Sci. U.S.A. 86:1934-1938(1989) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 101-242.
    6. Erratum
      Gould S.J., Subramani S., Scheffler I.E.
      Proc. Natl. Acad. Sci. U.S.A. 90:2556-2556(1993)
    7. "The C-terminus of the succinate dehydrogenase IP peptide of Saccharomyces cerevisiae is significant for assembly of complex II."
      Schmidt D.M., Saghbini M., Scheffler I.E.
      Biochemistry 31:8442-8448(1992) [PubMed] [Europe PMC] [Abstract]
      Cited for: MUTAGENESIS OF LYS-260; LYS-261 AND 260-LYS--ALA-266.
    8. "The Saccharomyces cerevisiae mitochondrial succinate:ubiquinone oxidoreductase."
      Lemire B.D., Oyedotun K.S.
      Biochim. Biophys. Acta 1553:102-116(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: REVIEW ON SUCCINATE DEHYDROGENASE.
    9. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    10. "The quaternary structure of the Saccharomyces cerevisiae succinate dehydrogenase. Homology modeling, cofactor docking, and molecular dynamics simulation studies."
      Oyedotun K.S., Lemire B.D.
      J. Biol. Chem. 279:9424-9431(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: 3D-STRUCTURE MODELING OF 21-266.

    Entry informationi

    Entry nameiSDHB_YEAST
    AccessioniPrimary (citable) accession number: P21801
    Secondary accession number(s): D6VXW5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 1, 1991
    Last sequence update: May 1, 1991
    Last modified: October 1, 2014
    This is version 148 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 9540 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families
    4. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    5. Yeast chromosome XII
      Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

    External Data

    Dasty 3