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Protein

Cytochrome c3

Gene

DvMF_2499

Organism
Desulfovibrio vulgaris (strain Miyazaki F / DSM 19637)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Participates in sulfate respiration coupled with phosphorylation by transferring electrons from the enzyme dehydrogenase to ferredoxin.

Miscellaneous

The second and fourth heme binding sites have unusual CXXXXCH motifs.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi45Iron (heme 1 axial ligand)1
Metal bindingi48Iron (heme 3 axial ligand)1
Binding sitei53Heme 1 (covalent)1
Binding sitei56Heme 1 (covalent)1
Metal bindingi57Iron (heme 1 axial ligand)1
Metal bindingi58Iron (heme 2 axial ligand)1
Binding sitei69Heme 2 (covalent); atypical1
Binding sitei74Heme 2 (covalent); atypical1
Metal bindingi75Iron (heme 2 axial ligand)1
Metal bindingi93Iron (heme 4 axial ligand)1
Binding sitei102Heme 3 (covalent)1
Binding sitei105Heme 3 (covalent)1
Metal bindingi106Iron (heme 3 axial ligand)1
Binding sitei123Heme 4 (covalent); atypical1
Binding sitei128Heme 4 (covalent); atypical1
Metal bindingi129Iron (heme 4 axial ligand)1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Biological processElectron transport, Sulfate respiration, Transport
LigandHeme, Iron, Metal-binding

Enzyme and pathway databases

BioCyciDVUL883:GCJ5-2546-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Cytochrome c3
Gene namesi
Ordered Locus Names:DvMF_2499
OrganismiDesulfovibrio vulgaris (strain Miyazaki F / DSM 19637)
Taxonomic identifieri883 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
Proteomesi
  • UP000001361 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Periplasm

Pathology & Biotechi

Chemistry databases

DrugBankiDB03317. Heme C.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 231 PublicationAdd BLAST23
ChainiPRO_000000650524 – 130Cytochrome c3Add BLAST107

Post-translational modificationi

Binds 4 heme groups per subunit.

Interactioni

Protein-protein interaction databases

STRINGi883.DvMF_2499.

Structurei

Secondary structure

1130
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi32 – 34Combined sources3
Beta strandi36 – 39Combined sources4
Beta strandi41 – 43Combined sources3
Helixi45 – 47Combined sources3
Turni48 – 50Combined sources3
Helixi53 – 55Combined sources3
Helixi88 – 93Combined sources6
Beta strandi95 – 99Combined sources5
Helixi102 – 110Combined sources9
Helixi114 – 121Combined sources8
Beta strandi123 – 128Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1IT1NMR-A24-130[»]
1J0OX-ray1.15A24-130[»]
1J0PX-ray0.91A23-130[»]
1WR5X-ray1.40A23-130[»]
2CDVX-ray1.80A24-130[»]
2EWIX-ray1.00A24-130[»]
2EWKX-ray1.00A24-130[»]
2EWUX-ray1.10A24-130[»]
2FFNX-ray1.80A24-130[»]
2YXCX-ray1.50A24-130[»]
2YYWX-ray1.33A24-130[»]
2YYXX-ray1.00A24-130[»]
2Z47X-ray1.60A/B24-130[»]
ProteinModelPortaliP00132.
SMRiP00132.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP00132.

Family & Domainsi

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG4106BES. Bacteria.
ENOG410XXW1. LUCA.
HOGENOMiHOG000136348.
OMAiLMICLMV.
OrthoDBiPOG091H32QK.

Family and domain databases

InterProiView protein in InterPro
IPR002322. Cyt_c_III.
IPR020942. Cyt_c_III_dom.
IPR011031. Multihaem_cyt.
PfamiView protein in Pfam
PF02085. Cytochrom_CIII. 1 hit.
PRINTSiPR00609. CYTOCHROMEC3.
SUPFAMiSSF48695. SSF48695. 1 hit.

Sequencei

Sequence statusi: Complete.

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

P00132-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKKMFLTGVL ALAVAIAMPA LAAAPKAPAD GLKMDKTKQP VVFNHSTHKA
60 70 80 90 100
VKCGDCHHPV NGKEDYQKCA TAGCHDNMDK KDKSAKGYYH AMHDKGTKFK
110 120 130
SCVGCHLETA GADAAKKKEL TGCKGSKCHS
Length:130
Mass (Da):13,843
Last modified:July 15, 1998 - v2
Checksum:iCCBBA60351B9EF8E
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti65D → N AA sequence (PubMed:6249799).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D31702 Genomic DNA. Translation: BAA06511.1.
CP001197 Genomic DNA. Translation: ACL09439.1.
PIRiS33874. CCDV3M.
RefSeqiWP_015946129.1. NC_011769.1.

Genome annotation databases

EnsemblBacteriaiACL09439; ACL09439; DvMF_2499.
KEGGidvm:DvMF_2499.
PATRICi21775419. VBIDesVul86729_2712.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D31702 Genomic DNA. Translation: BAA06511.1.
CP001197 Genomic DNA. Translation: ACL09439.1.
PIRiS33874. CCDV3M.
RefSeqiWP_015946129.1. NC_011769.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1IT1NMR-A24-130[»]
1J0OX-ray1.15A24-130[»]
1J0PX-ray0.91A23-130[»]
1WR5X-ray1.40A23-130[»]
2CDVX-ray1.80A24-130[»]
2EWIX-ray1.00A24-130[»]
2EWKX-ray1.00A24-130[»]
2EWUX-ray1.10A24-130[»]
2FFNX-ray1.80A24-130[»]
2YXCX-ray1.50A24-130[»]
2YYWX-ray1.33A24-130[»]
2YYXX-ray1.00A24-130[»]
2Z47X-ray1.60A/B24-130[»]
ProteinModelPortaliP00132.
SMRiP00132.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi883.DvMF_2499.

Chemistry databases

DrugBankiDB03317. Heme C.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACL09439; ACL09439; DvMF_2499.
KEGGidvm:DvMF_2499.
PATRICi21775419. VBIDesVul86729_2712.

Phylogenomic databases

eggNOGiENOG4106BES. Bacteria.
ENOG410XXW1. LUCA.
HOGENOMiHOG000136348.
OMAiLMICLMV.
OrthoDBiPOG091H32QK.

Enzyme and pathway databases

BioCyciDVUL883:GCJ5-2546-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP00132.

Family and domain databases

InterProiView protein in InterPro
IPR002322. Cyt_c_III.
IPR020942. Cyt_c_III_dom.
IPR011031. Multihaem_cyt.
PfamiView protein in Pfam
PF02085. Cytochrom_CIII. 1 hit.
PRINTSiPR00609. CYTOCHROMEC3.
SUPFAMiSSF48695. SSF48695. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiCYC3_DESVM
AccessioniPrimary (citable) accession number: P00132
Secondary accession number(s): B8DMZ9, Q46607
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: July 15, 1998
Last modified: May 10, 2017
This is version 125 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

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.