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Protein

Oxygen-dependent coproporphyrinogen-III oxidase

Gene

HEM13

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Involved in the heme biosynthesis. Catalyzes the aerobic oxidative decarboxylation of propionate groups of rings A and B of coproporphyrinogen-III to yield the vinyl groups in protoporphyrinogen-IX (By similarity).By similarity

Miscellaneous

Present with 22000 molecules/cell in log phase SD medium.1 Publication

Catalytic activityi

Coproporphyrinogen-III + O2 + 2 H+ = protoporphyrinogen-IX + 2 CO2 + 2 H2O.

Pathwayi: protoporphyrin-IX biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes protoporphyrinogen-IX from coproporphyrinogen-III (O2 route).
Proteins known to be involved in this subpathway in this organism are:
  1. Oxygen-dependent coproporphyrinogen-III oxidase (HEM13)
This subpathway is part of the pathway protoporphyrin-IX biosynthesis, which is itself part of Porphyrin-containing compound metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes protoporphyrinogen-IX from coproporphyrinogen-III (O2 route), the pathway protoporphyrin-IX biosynthesis and in Porphyrin-containing compound metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei117SubstrateBy similarity1
Active sitei131Proton donorBy similarity1
Sitei201Important for dimerizationBy similarity1

GO - Molecular functioni

  • coproporphyrinogen oxidase activity Source: SGD
  • protein homodimerization activity Source: UniProtKB

GO - Biological processi

  • heme biosynthetic process Source: SGD
  • protoporphyrinogen IX biosynthetic process Source: UniProtKB-UniPathway

Keywordsi

Molecular functionOxidoreductase
Biological processHeme biosynthesis, Porphyrin biosynthesis

Enzyme and pathway databases

BioCyciYEAST:YDR044W-MONOMER
ReactomeiR-SCE-189451 Heme biosynthesis
UniPathwayiUPA00251; UER00322

Names & Taxonomyi

Protein namesi
Recommended name:
Oxygen-dependent coproporphyrinogen-III oxidase (EC:1.3.3.3)
Short name:
COX
Short name:
Coprogen oxidase
Short name:
Coproporphyrinogenase
Gene namesi
Name:HEM13
Ordered Locus Names:YDR044W
ORF Names:YD5112.02
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi

Organism-specific databases

EuPathDBiFungiDB:YDR044W
SGDiS000002451 HEM13

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001098781 – 328Oxygen-dependent coproporphyrinogen-III oxidaseAdd BLAST328

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi193Interchain1 Publication

Keywords - PTMi

Disulfide bond

Proteomic databases

MaxQBiP11353
PaxDbiP11353
PRIDEiP11353

PTM databases

iPTMnetiP11353

Interactioni

Subunit structurei

Homodimer.1 Publication

GO - Molecular functioni

Protein-protein interaction databases

BioGridi32099, 227 interactors
DIPiDIP-1614N
IntActiP11353, 10 interactors
MINTiP11353
STRINGi4932.YDR044W

Structurei

Secondary structure

1328
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi7 – 9Combined sources3
Helixi12 – 32Combined sources21
Beta strandi35 – 37Combined sources3
Beta strandi40 – 45Combined sources6
Helixi47 – 49Combined sources3
Beta strandi51 – 53Combined sources3
Beta strandi55 – 60Combined sources6
Beta strandi62 – 78Combined sources17
Helixi80 – 84Combined sources5
Helixi87 – 89Combined sources3
Beta strandi99 – 102Combined sources4
Beta strandi109 – 124Combined sources16
Beta strandi129 – 140Combined sources12
Beta strandi144 – 158Combined sources15
Helixi164 – 179Combined sources16
Helixi185 – 189Combined sources5
Helixi193 – 200Combined sources8
Beta strandi204 – 207Combined sources4
Beta strandi209 – 216Combined sources8
Helixi221 – 232Combined sources12
Helixi235 – 244Combined sources10
Turni245 – 248Combined sources4
Helixi253 – 263Combined sources11
Helixi265 – 269Combined sources5
Helixi275 – 282Combined sources8
Helixi288 – 291Combined sources4
Helixi292 – 294Combined sources3
Beta strandi297 – 300Combined sources4
Helixi312 – 321Combined sources10

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1TK1X-ray1.90A6-265[»]
1TKLX-ray2.00A/B3-328[»]
1TLBX-ray2.40A/D/Q/S/U/W3-328[»]
1TXNX-ray1.70A/B1-328[»]
ProteinModelPortaliP11353
SMRiP11353
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP11353

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni57 – 66Important for dimerizationBy similarity10
Regioni133 – 135Substrate bindingBy similarity3
Regioni266 – 302Important for dimerizationBy similarityAdd BLAST37
Regioni285 – 290Substrate bindingBy similarity6

Sequence similaritiesi

Phylogenomic databases

GeneTreeiENSGT00390000017311
HOGENOMiHOG000262768
InParanoidiP11353
KOiK00228
OMAiMDLTPYY
OrthoDBiEOG092C2BWE

Family and domain databases

Gene3Di3.40.1500.10, 1 hit
InterProiView protein in InterPro
IPR001260 Coprogen_oxidase_aer
IPR036406 Coprogen_oxidase_aer_sf
IPR018375 Coprogen_oxidase_CS
PANTHERiPTHR10755 PTHR10755, 1 hit
PfamiView protein in Pfam
PF01218 Coprogen_oxidas, 1 hit
PIRSFiPIRSF000166 Coproporphyri_ox, 1 hit
PRINTSiPR00073 COPRGNOXDASE
SUPFAMiSSF102886 SSF102886, 1 hit
PROSITEiView protein in PROSITE
PS01021 COPROGEN_OXIDASE, 1 hit

Sequencei

Sequence statusi: Complete.

P11353-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPAPQDPRNL PIRQQMEALI RRKQAEITQG LESIDTVKFH ADTWTRGNDG
60 70 80 90 100
GGGTSMVIQD GTTFEKGGVN VSVVYGQLSP AAVSAMKADH KNLRLPEDPK
110 120 130 140 150
TGLPVTDGVK FFACGLSMVI HPVNPHAPTT HLNYRYFETW NQDGTPQTWW
160 170 180 190 200
FGGGADLTPS YLYEEDGQLF HQLHKDALDK HDTALYPRFK KWCDEYFYIT
210 220 230 240 250
HRKETRGIGG IFFDDYDERD PQEILKMVED CFDAFLPSYL TIVKRRKDMP
260 270 280 290 300
YTKEEQQWQA IRRGRYVEFN LIYDRGTQFG LRTPGSRVES ILMSLPEHAS
310 320
WLYNHHPAPG SREAKLLEVT TKPREWVK
Length:328
Mass (Da):37,712
Last modified:October 1, 1996 - v2
Checksum:i9C166F03BD0B0B4C
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti226K → N in AAA34529 (PubMed:2838478).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J03873 Genomic DNA Translation: AAA34529.1
Z49812 Genomic DNA Translation: CAA89966.1
AY557656 Genomic DNA Translation: AAS55982.1
BK006938 Genomic DNA Translation: DAA11892.1
PIRiS55079 DEBYCH
RefSeqiNP_010329.1, NM_001180352.1

Genome annotation databases

EnsemblFungiiYDR044W; YDR044W; YDR044W
GeneIDi851614
KEGGisce:YDR044W

Entry informationi

Entry nameiHEM6_YEAST
AccessioniPrimary (citable) accession number: P11353
Secondary accession number(s): D6VS32
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 1, 1989
Last sequence update: October 1, 1996
Last modified: May 23, 2018
This is version 170 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

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

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
  4. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  5. Yeast chromosome IV
    Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names

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