P00096 (CY550_PARDE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Cytochrome c-550

Alternative name(s):
Cytochrome C2
Cytochrome c550

Gene names

Name:

cycA

Organism

Paracoccus denitrificans

Taxonomic identifier

266 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rhodobacterales › Rhodobacteraceae › Paracoccus

Protein attributes

Sequence length	155 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Post-translational modification

Binds 1 heme group per subunit.

Ontologies

Keywords
Biological process	Electron transport Transport
Domain	Signal
Ligand	Heme Iron Metal-binding
PTM	Pyrrolidone carboxylic acid
Technical term	3D-structure Direct protein sequencing
Gene Ontology (GO)
Biological process	electron transport chain Inferred from electronic annotation. Source: UniProtKB-KW transport Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	electron carrier activity Inferred from electronic annotation. Source: InterPro heme binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Signal peptide

1 – 20

20

Ref.4

Chain

21 – 149

129

Cytochrome c-550

PRO_0000006523

Propeptide

150 – 155

6

PRO_0000006524

Sites

Metal binding

39

1

Iron (heme axial ligand) Ref.5

Metal binding

120

1

Iron (heme axial ligand) Ref.5

Binding site

35

1

Heme (covalent) Ref.5

Binding site

38

1

Heme (covalent) Ref.5

Amino acid modifications

Modified residue

21

1

Pyrrolidone carboxylic acid Ref.4

Natural variations

Natural variant

149

1

Missing in 50% of the molecules.

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

155

Helix Strand Turn

Details...

Helix

25 – 31

7

Helix

32 – 34

3

Turn

35 – 38

4

Beta strand

48 – 50

3

Beta strand

54 – 56

3

Helix

77 – 85

9

Helix

93 – 101

9

Helix

103 – 111

9

Helix

128 – 137

10

Sequences

	Sequence		Length	Mass (Da)
	P00096 [UniParc]. Last modified February 1, 1991. Version 2. Checksum: CB003CA423879B03	FASTA	155	16,398
	10 20 30 40 50 60 MKISIYATLA AITLALPAAA QDGDAAKGEK EFNKCKACHM IQAPDGTDII KGGKTGPNLY 70 80 90 100 110 120 GVVGRKIASE EGFKYGEGIL EVAEKNPDLT WTEADLIEYV TDPKPWLVKM TDDKGAKTKM 130 140 150 TFKMGKNQAD VVAFLAQNSP DAGGDGEAAA EGESN

References

[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: 2155830] [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: 2153663] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: Pd 1222.
[3]	Erratum van Spanning R.J.M., Wansell C., Harms N., Oltmann L.F., Stouthamer A.H. J. Bacteriol. 172:3534-3534(1990) [PubMed: 2160949] [Abstract]
[4]	"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: 6270339] [Abstract] Cited for: PROTEIN SEQUENCE OF 21-149. Strain: ATCC 13543 / NRRL B-3784 / NRC 449.
[5]	"The structure of Paracoccus denitrificans cytochrome c550." Timkovich R., Dickerson R.E. J. Biol. Chem. 251:4033-4046(1976) [PubMed: 180013] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.45 ANGSTROMS).
[6]	"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: 8179333] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.7 ANGSTROMS).
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

Y07533 Genomic DNA. Translation: CAA68820.1.
M27304 Genomic DNA. Translation: AAA88364.1.

PIR

CCPC50. S08269.

RefSeq

YP_915726.1. NC_008686.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
155C	X-ray	2.50	A	23-142	[»]
1COT	X-ray	1.70	A	21-149	[»]

ProteinModelPortal

P00096.

SMR

P00096. Positions 22-142.

ModBase

Search...

Protein family/group databases

TCDB

3.D.4.6.1. proton-translocating cytochrome oxidase (COX) superfamily.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

GeneID

4581059.

PATRIC

22854989. VBIParDen97112_1872.

Family and domain databases

InterPro

IPR009056. Cyt_c_dom.
[Graphical view]

Gene3D

G3DSA:1.10.760.10. Cytochrome_c_R. 1 hit.

SUPFAM

SSF46626. Cytochrome_c. 1 hit.

PROSITE

PS51007. CYTC. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

CY550_PARDE

Accession

Primary (citable) accession number: P00096

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 21, 1986
Last sequence update:	February 1, 1991
Last modified:	January 25, 2012
This is version 93 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program