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Protein

Oxygen-dependent coproporphyrinogen-III oxidase

Gene

hemF

Organism
Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

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.UniRule annotation

Catalytic activityi

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

Cofactori

a divalent metal cationUniRule annotation

Pathwayi: protoporphyrin-IX biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes protoporphyrinogen-IX from coproporphyrinogen-III (O2 route).UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Oxygen-dependent coproporphyrinogen-III oxidase (hemF)
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 sitei133SubstrateUniRule annotation1
Metal bindingi137Divalent metal cationUniRule annotation1
Active sitei147Proton donorUniRule annotation1
Metal bindingi147Divalent metal cationUniRule annotation1
Metal bindingi185Divalent metal cationUniRule annotation1
Metal bindingi216Divalent metal cationUniRule annotation1
Sitei216Important for dimerizationUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionOxidoreductase
Biological processHeme biosynthesis, Porphyrin biosynthesis
LigandMetal-binding

Enzyme and pathway databases

UniPathwayiUPA00251; UER00322.

Names & Taxonomyi

Protein namesi
Recommended name:
Oxygen-dependent coproporphyrinogen-III oxidaseUniRule annotation (EC:1.3.3.3UniRule annotation)
Short name:
CPOUniRule annotation
Short name:
Coprogen oxidaseUniRule annotation
Short name:
CoproporphyrinogenaseUniRule annotation
Gene namesi
Name:hemFUniRule annotation
Ordered Locus Names:bll2481
OrganismiBradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Taxonomic identifieri224911 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
Proteomesi
  • UP000002526 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001098861 – 316Oxygen-dependent coproporphyrinogen-III oxidaseAdd BLAST316

Interactioni

Subunit structurei

Homodimer.UniRule annotation

GO - Molecular functioni

Protein-protein interaction databases

STRINGi224911.bll2481.

Structurei

3D structure databases

ProteinModelPortaliQ89SC2.
SMRiQ89SC2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni149 – 151Substrate bindingUniRule annotation3
Regioni281 – 316Important for dimerizationUniRule annotationAdd BLAST36
Regioni299 – 301Substrate bindingUniRule annotation3

Sequence similaritiesi

Belongs to the aerobic coproporphyrinogen-III oxidase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105DBS. Bacteria.
COG0408. LUCA.
HOGENOMiHOG000262768.
InParanoidiQ89SC2.
KOiK00228.
OMAiMDLTPYY.
OrthoDBiPOG091H03H2.
PhylomeDBiQ89SC2.

Family and domain databases

Gene3Di3.40.1500.10. 1 hit.
HAMAPiMF_00333. Coprogen_oxidas. 1 hit.
InterProiView protein in InterPro
IPR001260. Coprogen_oxidase_aer.
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.

Q89SC2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVGTAQGRLC PPYGRSVREL NMDVSTIEDR KTRARAWFEA LRDDICASFE
60 70 80 90 100
RLEDDAPQGL YPGEAGRFTR TPWQRTDHSG AAGGGGVMSM MSGRLFEKVG
110 120 130 140 150
VHCSTVHGEF APEFRAQIPG AADDPRFWAS GISLIAHLRN PHVPAVHMNT
160 170 180 190 200
RFVVTTKAWF GGGADLTPVL DRRRTQDDAD SIAFHAAMKE ACVQPNGVAD
210 220 230 240 250
YDKYKKWCDE YFYLPHRKEA RGIGGIFYDW HDSGDWDADL AFTQDVGRAF
260 270 280 290 300
LKIYPDIVRR NFASAWTAAD REEQLIRRGR YVEFNLLYDR GTIFGLKTGG
310
NVDSILSSLP PEVKWP
Length:316
Mass (Da):35,498
Last modified:June 1, 2003 - v1
Checksum:i8698744018E989CF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000040 Genomic DNA. Translation: BAC47746.1.
RefSeqiNP_769121.1. NC_004463.1.
WP_011085268.1. NZ_CP011360.1.

Genome annotation databases

EnsemblBacteriaiBAC47746; BAC47746; BAC47746.
GeneIDi1050400.
KEGGibja:bll2481.
PATRICifig|224911.5.peg.2434.

Similar proteinsi

Entry informationi

Entry nameiHEM6_BRADU
AccessioniPrimary (citable) accession number: Q89SC2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 16, 2004
Last sequence update: June 1, 2003
Last modified: September 27, 2017
This is version 86 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families