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P98002

- COX1B_PARDE

UniProt

P98002 - COX1B_PARDE

Protein

Cytochrome c oxidase subunit 1-beta

Gene

ctaDII

Organism
Paracoccus denitrificans
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 114 (01 Oct 2014)
      Sequence version 1 (01 Nov 1995)
      Previous versions | rss
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    Functioni

    Subunit I and II form the functional core of the enzyme complex. Electrons originating in cytochrome c are transferred via heme a and Cu(A) to the binuclear center formed by heme a3 and Cu(B). This cytochrome c oxidase shows proton pump activity across the membrane in addition to the electron transfer.

    Catalytic activityi

    4 ferrocytochrome c + O2 + 4 H+ = 4 ferricytochrome c + 2 H2O.

    Cofactori

    Binds 1 copper B ion per subunit.
    Binds 2 heme groups per subunit.

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi94 – 941Iron (heme A axial ligand)
    Metal bindingi276 – 2761Copper B
    Metal bindingi280 – 2801Copper B
    Metal bindingi325 – 3251Copper B
    Metal bindingi326 – 3261Copper B
    Metal bindingi411 – 4111Iron (heme A3 axial ligand)
    Metal bindingi413 – 4131Iron (heme A axial ligand)

    GO - Molecular functioni

    1. copper ion binding Source: InterPro
    2. cytochrome-c oxidase activity Source: UniProtKB-EC
    3. heme binding Source: InterPro
    4. iron ion binding Source: InterPro

    GO - Biological processi

    1. aerobic respiration Source: InterPro
    2. electron transport chain Source: InterPro
    3. oxidative phosphorylation Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Electron transport, Hydrogen ion transport, Ion transport, Respiratory chain, Transport

    Keywords - Ligandi

    Copper, Heme, Iron, Metal-binding

    Enzyme and pathway databases

    UniPathwayiUPA00705.

    Protein family/group databases

    TCDBi3.D.4.6.1. the proton-translocating cytochrome oxidase (cox) superfamily.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Cytochrome c oxidase subunit 1-beta (EC:1.9.3.1)
    Alternative name(s):
    Cytochrome aa3 subunit 1-beta
    Cytochrome c oxidase polypeptide I-beta
    Gene namesi
    Name:ctaDII
    OrganismiParacoccus denitrificans
    Taxonomic identifieri266 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccus

    Subcellular locationi

    GO - Cellular componenti

    1. integral component of membrane Source: UniProtKB-KW
    2. plasma membrane Source: UniProtKB-SubCell
    3. respiratory chain Source: UniProtKB-KW

    Keywords - Cellular componenti

    Cell inner membrane, Cell membrane, Membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 558558Cytochrome c oxidase subunit 1-betaPRO_0000183456Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi66 ↔ 80
    Cross-linki276 ↔ 2801'-histidyl-3'-tyrosine (His-Tyr)

    Post-translational modificationi

    His-276 and Tyr-280 are involved in the formation of a copper-coordinated covalent cross-link at the active site of the catalytic subunit I.

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    DIPiDIP-6088N.

    Structurei

    Secondary structure

    1
    558
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi19 – 213
    Turni22 – 243
    Helixi28 – 5730
    Beta strandi59 – 613
    Beta strandi63 – 664
    Beta strandi76 – 783
    Helixi84 – 10118
    Helixi103 – 1075
    Turni108 – 1103
    Helixi111 – 1199
    Helixi128 – 15023
    Beta strandi151 – 1533
    Helixi154 – 1563
    Beta strandi157 – 1593
    Turni163 – 1664
    Helixi170 – 1734
    Beta strandi175 – 1773
    Helixi178 – 20629
    Helixi214 – 2163
    Helixi219 – 25032
    Beta strandi254 – 2563
    Helixi258 – 2603
    Helixi264 – 29835
    Helixi305 – 31814
    Helixi323 – 3264
    Helixi328 – 3303
    Helixi334 – 34512
    Helixi348 – 36215
    Helixi371 – 39424
    Helixi396 – 4027
    Beta strandi403 – 4053
    Helixi406 – 41712
    Helixi420 – 43617
    Beta strandi437 – 4393
    Helixi442 – 46019
    Helixi462 – 4687
    Beta strandi472 – 4743
    Helixi480 – 4823
    Helixi483 – 51331
    Beta strandi514 – 5163
    Helixi530 – 5334
    Beta strandi540 – 5423
    Helixi549 – 5524

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1AR1X-ray2.70A1-558[»]
    1QLEX-ray3.00A17-554[»]
    1ZYYmodel-A17-545[»]
    3EHBX-ray2.32A1-558[»]
    3HB3X-ray2.25A1-558[»]
    ProteinModelPortaliP98002.
    SMRiP98002. Positions 17-554.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP98002.

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini1 – 2828CytoplasmicAdd
    BLAST
    Topological domaini60 – 8223PeriplasmicAdd
    BLAST
    Topological domaini121 – 1266Cytoplasmic
    Topological domaini152 – 17625PeriplasmicAdd
    BLAST
    Topological domaini207 – 21711CytoplasmicAdd
    BLAST
    Topological domaini252 – 26211PeriplasmicAdd
    BLAST
    Topological domaini300 – 3034Cytoplasmic
    Topological domaini332 – 3321Periplasmic
    Topological domaini365 – 3695Cytoplasmic
    Topological domaini396 – 4049Periplasmic
    Topological domaini438 – 4403Cytoplasmic
    Topological domaini470 – 4789Periplasmic
    Topological domaini515 – 55844CytoplasmicAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei29 – 5931Helical; Name=IAdd
    BLAST
    Transmembranei83 – 12038Helical; Name=IIAdd
    BLAST
    Transmembranei127 – 15125Helical; Name=IIIAdd
    BLAST
    Transmembranei177 – 20630Helical; Name=IVAdd
    BLAST
    Transmembranei218 – 25134Helical; Name=VAdd
    BLAST
    Transmembranei263 – 29937Helical; Name=VIAdd
    BLAST
    Transmembranei304 – 33128Helical; Name=VIIAdd
    BLAST
    Transmembranei333 – 36432Helical; Name=VIIIAdd
    BLAST
    Transmembranei370 – 39526Helical; Name=IXAdd
    BLAST
    Transmembranei405 – 43733Helical; Name=XAdd
    BLAST
    Transmembranei441 – 46929Helical; Name=XIAdd
    BLAST
    Transmembranei479 – 51436Helical; Name=XIIAdd
    BLAST

    Family & Domainsi

    Sequence similaritiesi

    Keywords - Domaini

    Transmembrane, Transmembrane helix

    Phylogenomic databases

    KOiK02274.
    OrthoDBiEOG6B35XR.

    Family and domain databases

    Gene3Di1.20.210.10. 1 hit.
    InterProiIPR000883. COX1.
    IPR023615. Cyt_c_Oxase_su1_BS.
    IPR023616. Cyt_c_Oxase_su1_dom.
    IPR014241. Cyt_c_oxidase_su1_bac.
    [Graphical view]
    PANTHERiPTHR10422. PTHR10422. 1 hit.
    PfamiPF00115. COX1. 1 hit.
    [Graphical view]
    PRINTSiPR01165. CYCOXIDASEI.
    SUPFAMiSSF81442. SSF81442. 1 hit.
    TIGRFAMsiTIGR02891. CtaD_CoxA. 1 hit.
    PROSITEiPS50855. COX1. 1 hit.
    PS00077. COX1_CUB. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P98002-1 [UniParc]FASTAAdd to Basket

    « Hide

    MADAAVHGHG DHHDTRGFFT RWFMSTNHKD IGILYLFTAG IVGLISVCFT    50
    VYMRMELQHP GVQYMCLEGA RLIADASAEC TPNGHLWNVM ITYHGVLMMF 100
    FVVIPALFGG FGNYFMPLHI GAPDMAFPRL NNLSYWMYVC GVALGVASLL 150
    APGGNDQMGS GVGWVLYPPL STTEAGYSMD LAIFAVHVSG ASSILGAINI 200
    ITTFLNMRAP GMTLFKVPLF AWSVFITAWL ILLSLPVLAG AITMLLMDRN 250
    FGTQFFDPAG GGDPVLYQHI LWFFGHPEVY IIILPGFGII SHVISTFAKK 300
    PIFGYLPMVL AMAAIGILGF VVWAHHMYTA GMSLTQQAYF MLATMTIAVP 350
    TGIKVFSWIA TMWGGSIEFK TPMLWAFGFL FLFTVGGVTG VVLSQAPLDR 400
    VYHDTYYVVA HFHYVMSLGA VFGIFAGVYY WIGKMSGRQY PEWAGQLHFW 450
    MMFIGSNLIF FPQHFLGRQG MPRRYIDYPV EFAYWNNISS IGAYISFASF 500
    LFFIGIVFYT LFAGKRVNVP NYWNEHADTL EWTLPSPPPE HTFETLPKRE 550
    DWDRAHAH 558
    Length:558
    Mass (Da):62,439
    Last modified:November 1, 1995 - v1
    Checksum:iA8402453C0C0339E
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y07533 Genomic DNA. Translation: CAA68821.1.
    PIRiS08270.
    RefSeqiYP_915727.1. NC_008686.1.

    Genome annotation databases

    GeneIDi4581060.
    KEGGipde:Pden_1938.
    PATRICi22854991. VBIParDen97112_1873.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y07533 Genomic DNA. Translation: CAA68821.1 .
    PIRi S08270.
    RefSeqi YP_915727.1. NC_008686.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1AR1 X-ray 2.70 A 1-558 [» ]
    1QLE X-ray 3.00 A 17-554 [» ]
    1ZYY model - A 17-545 [» ]
    3EHB X-ray 2.32 A 1-558 [» ]
    3HB3 X-ray 2.25 A 1-558 [» ]
    ProteinModelPortali P98002.
    SMRi P98002. Positions 17-554.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-6088N.

    Protein family/group databases

    TCDBi 3.D.4.6.1. the proton-translocating cytochrome oxidase (cox) superfamily.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 4581060.
    KEGGi pde:Pden_1938.
    PATRICi 22854991. VBIParDen97112_1873.

    Phylogenomic databases

    KOi K02274.
    OrthoDBi EOG6B35XR.

    Enzyme and pathway databases

    UniPathwayi UPA00705 .

    Miscellaneous databases

    EvolutionaryTracei P98002.

    Family and domain databases

    Gene3Di 1.20.210.10. 1 hit.
    InterProi IPR000883. COX1.
    IPR023615. Cyt_c_Oxase_su1_BS.
    IPR023616. Cyt_c_Oxase_su1_dom.
    IPR014241. Cyt_c_oxidase_su1_bac.
    [Graphical view ]
    PANTHERi PTHR10422. PTHR10422. 1 hit.
    Pfami PF00115. COX1. 1 hit.
    [Graphical view ]
    PRINTSi PR01165. CYCOXIDASEI.
    SUPFAMi SSF81442. SSF81442. 1 hit.
    TIGRFAMsi TIGR02891. CtaD_CoxA. 1 hit.
    PROSITEi PS50855. COX1. 1 hit.
    PS00077. COX1_CUB. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Are there isoenzymes of cytochrome c oxidase in Paracoccus denitrificans?"
      Raitio M., Pispa J.M., Metso T., Saraste M.
      FEBS Lett. 261:431-435(1990) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: Pd 1222.
    2. "Structure at 2.8-A resolution of cytochrome c oxidase from Paracoccus denitrificans."
      Iwata S., Ostermeier C., Ludwig B., Michel H.
      Nature 376:660-669(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS).
    3. "Structure at 2.7-A resolution of the Paracoccus denitrificans two-subunit cytochrome c oxidase complexed with an antibody FV fragment."
      Ostermeier C., Harrenga A., Ermler U., Michel H.
      Proc. Natl. Acad. Sci. U.S.A. 94:10547-10553(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.7 ANGSTROMS).
    4. "Evidence for a copper-coordinated histidine-tyrosine cross-link in the active site of cytochrome oxidase."
      Buse G., Soulimane T., Dewor M., Meyer H.E., Blueggel M.
      Protein Sci. 8:985-990(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: COVALENT BOND.
    5. Cited for: REVIEW.

    Entry informationi

    Entry nameiCOX1B_PARDE
    AccessioniPrimary (citable) accession number: P98002
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1995
    Last sequence update: November 1, 1995
    Last modified: October 1, 2014
    This is version 114 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

    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

    External Data

    Dasty 3