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P98002

- COX1B_PARDE

UniProt

P98002 - COX1B_PARDE

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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

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
Complete GO annotation...

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

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 2828Cytoplasmic
Add
BLAST
Transmembranei29 – 5931Helical; Name=I
Add
BLAST
Topological domaini60 – 8223Periplasmic
Add
BLAST
Transmembranei83 – 12038Helical; Name=II
Add
BLAST
Topological domaini121 – 1266Cytoplasmic
Transmembranei127 – 15125Helical; Name=III
Add
BLAST
Topological domaini152 – 17625Periplasmic
Add
BLAST
Transmembranei177 – 20630Helical; Name=IV
Add
BLAST
Topological domaini207 – 21711Cytoplasmic
Add
BLAST
Transmembranei218 – 25134Helical; Name=V
Add
BLAST
Topological domaini252 – 26211Periplasmic
Add
BLAST
Transmembranei263 – 29937Helical; Name=VI
Add
BLAST
Topological domaini300 – 3034Cytoplasmic
Transmembranei304 – 33128Helical; Name=VII
Add
BLAST
Topological domaini332 – 3321Periplasmic
Transmembranei333 – 36432Helical; Name=VIII
Add
BLAST
Topological domaini365 – 3695Cytoplasmic
Transmembranei370 – 39526Helical; Name=IX
Add
BLAST
Topological domaini396 – 4049Periplasmic
Transmembranei405 – 43733Helical; Name=X
Add
BLAST
Topological domaini438 – 4403Cytoplasmic
Transmembranei441 – 46929Helical; Name=XI
Add
BLAST
Topological domaini470 – 4789Periplasmic
Transmembranei479 – 51436Helical; Name=XII
Add
BLAST
Topological domaini515 – 55844Cytoplasmic
Add
BLAST

GO - Cellular componenti

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

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-beta
PRO_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

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.

Miscellaneous databases

EvolutionaryTraceiP98002.

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: September 3, 2014
This is version 113 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

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