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Protein

Cytochrome c-550

Gene

cycA

Organism
Paracoccus denitrificans
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei35 – 351Heme (covalent)PROSITE-ProRule annotation1 Publication
Binding sitei38 – 381Heme (covalent)PROSITE-ProRule annotation1 Publication
Metal bindingi39 – 391Iron (heme axial ligand)PROSITE-ProRule annotation1 Publication
Metal bindingi120 – 1201Iron (heme axial ligand)PROSITE-ProRule annotation1 Publication

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Electron transport, Transport

Keywords - Ligandi

Heme, Iron, Metal-binding

Protein family/group databases

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

Names & Taxonomyi

Protein namesi
Recommended name:
Cytochrome c-550
Alternative name(s):
Cytochrome C2
Cytochrome c550
Gene namesi
Name:cycA
OrganismiParacoccus denitrificans
Taxonomic identifieri266 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 20201 PublicationAdd
BLAST
Chaini21 – 149129Cytochrome c-550PRO_0000006523Add
BLAST
Propeptidei150 – 1556PRO_0000006524

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei21 – 211Pyrrolidone carboxylic acid1 Publication

Post-translational modificationi

Binds 1 heme group per subunit.

Keywords - PTMi

Pyrrolidone carboxylic acid

Interactioni

Protein-protein interaction databases

STRINGi318586.Pden_1937.

Structurei

Secondary structure

1
155
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi25 – 317Combined sources
Helixi32 – 343Combined sources
Turni35 – 384Combined sources
Beta strandi44 – 463Combined sources
Beta strandi48 – 503Combined sources
Beta strandi54 – 563Combined sources
Beta strandi70 – 734Combined sources
Helixi77 – 859Combined sources
Helixi93 – 1019Combined sources
Helixi103 – 1119Combined sources
Helixi128 – 13710Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
155CX-ray2.50A23-142[»]
1COTX-ray1.70A21-149[»]
ProteinModelPortaliP00096.
SMRiP00096. Positions 22-142.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP00096.

Family & Domainsi

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG4105KNK. Bacteria.
COG3474. LUCA.
OrthoDBiEOG6MM1PX.

Family and domain databases

Gene3Di1.10.760.10. 1 hit.
InterProiIPR009056. Cyt_c-like_dom.
IPR002327. Cyt_c_1A/1B.
[Graphical view]
PANTHERiPTHR11961. PTHR11961. 1 hit.
SUPFAMiSSF46626. SSF46626. 1 hit.
PROSITEiPS51007. CYTC. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P00096-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKISIYATLA AITLALPAAA QDGDAAKGEK EFNKCKACHM IQAPDGTDII
60 70 80 90 100
KGGKTGPNLY GVVGRKIASE EGFKYGEGIL EVAEKNPDLT WTEADLIEYV
110 120 130 140 150
TDPKPWLVKM TDDKGAKTKM TFKMGKNQAD VVAFLAQNSP DAGGDGEAAA

EGESN
Length:155
Mass (Da):16,398
Last modified:February 1, 1991 - v2
Checksum:iCB003CA423879B03
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti149 – 1491Missing in 50% of the molecules.

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y07533 Genomic DNA. Translation: CAA68820.1.
M27304 Genomic DNA. Translation: AAA88364.1.
PIRiS08269. CCPC50.

Genome annotation databases

PATRICi22854989. VBIParDen97112_1872.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y07533 Genomic DNA. Translation: CAA68820.1.
M27304 Genomic DNA. Translation: AAA88364.1.
PIRiS08269. CCPC50.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
155CX-ray2.50A23-142[»]
1COTX-ray1.70A21-149[»]
ProteinModelPortaliP00096.
SMRiP00096. Positions 22-142.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi318586.Pden_1937.

Protein family/group databases

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

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

PATRICi22854989. VBIParDen97112_1872.

Phylogenomic databases

eggNOGiENOG4105KNK. Bacteria.
COG3474. LUCA.
OrthoDBiEOG6MM1PX.

Miscellaneous databases

EvolutionaryTraceiP00096.

Family and domain databases

Gene3Di1.10.760.10. 1 hit.
InterProiIPR009056. Cyt_c-like_dom.
IPR002327. Cyt_c_1A/1B.
[Graphical view]
PANTHERiPTHR11961. PTHR11961. 1 hit.
SUPFAMiSSF46626. SSF46626. 1 hit.
PROSITEiPS51007. CYTC. 1 hit.
[Graphical view]
ProtoNetiSearch...

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. "Mutagenesis of the gene encoding cytochrome c550 of Paracoccus denitrificans and analysis of the resultant physiological effects."
    van Spanning R.J.M., Wansell C., Harms N., Oltmann L.F., Stouthamer A.H.
    J. Bacteriol. 172:986-996(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: Pd 1222.
  3. "A reassessment of the structure of Paracoccus cytochrome c-550."
    Ambler R.P., Meyer T.E., Kamen M.D., Schichman S.A., Sawyer L.
    J. Mol. Biol. 147:351-356(1981) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 21-149.
    Strain: ATCC 13543 / NRRL B-3784 / NRC 449.
  4. "The structure of Paracoccus denitrificans cytochrome c550."
    Timkovich R., Dickerson R.E.
    J. Biol. Chem. 251:4033-4046(1976) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.45 ANGSTROMS).
  5. "X-ray structure of the cytochrome c2 isolated from Paracoccus denitrificans refined to 1.7-A resolution."
    Benning M.M., Meyer T.E., Holden H.M.
    Arch. Biochem. Biophys. 310:460-466(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.7 ANGSTROMS).

Entry informationi

Entry nameiCY550_PARDE
AccessioniPrimary (citable) accession number: P00096
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: February 1, 1991
Last modified: November 11, 2015
This is version 113 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Direct protein sequencing

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references

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.