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O24164

- PPOM_TOBAC

UniProt

O24164 - PPOM_TOBAC

Protein

Protoporphyrinogen oxidase, mitochondrial

Gene

PPXII

Organism
Nicotiana tabacum (Common tobacco)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 92 (01 Oct 2014)
      Sequence version 1 (01 Jan 1998)
      Previous versions | rss
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    Functioni

    Catalyzes the 6-electron oxidation of protoporphyrinogen-IX to form protoporphyrin-IX.1 Publication
    Provides precursor for the mitochondrial and plastidic heme synthesis and the predominant chlorophyll synthesis in plastids.1 Publication

    Catalytic activityi

    Protoporphyrinogen-IX + 3 O2 = protoporphyrin-IX + 3 H2O2.

    Cofactori

    Binds 1 FAD per subunit.1 Publication

    Enzyme regulationi

    Inhibited by the herbicide acifluorfen.

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei51 – 511FAD1 Publication
    Binding sitei264 – 2641FAD; via amide nitrogen and carbonyl oxygen1 Publication

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi20 – 256FAD1 Publication
    Nucleotide bindingi43 – 442FAD1 Publication
    Nucleotide bindingi65 – 684FAD1 Publication
    Nucleotide bindingi473 – 4753FAD1 Publication

    GO - Molecular functioni

    1. oxygen-dependent protoporphyrinogen oxidase activity Source: UniProtKB-EC

    GO - Biological processi

    1. protoporphyrinogen IX biosynthetic process Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Heme biosynthesis, Porphyrin biosynthesis

    Keywords - Ligandi

    FAD, Flavoprotein

    Enzyme and pathway databases

    BioCyciMetaCyc:MONOMER-11759.
    UniPathwayiUPA00251; UER00324.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Protoporphyrinogen oxidase, mitochondrial (EC:1.3.3.4)
    Alternative name(s):
    PX-2
    Protoporphyrinogen IX oxidase isozyme II
    Short name:
    PPO II
    Short name:
    PPX II
    Gene namesi
    Name:PPXII
    Synonyms:PPOX2
    OrganismiNicotiana tabacum (Common tobacco)
    Taxonomic identifieri4097 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaeasteridslamiidsSolanalesSolanaceaeNicotianoideaeNicotianeaeNicotiana

    Subcellular locationi

    Mitochondrion 1 Publication

    GO - Cellular componenti

    1. mitochondrion Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Mitochondrion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 504504Protoporphyrinogen oxidase, mitochondrialPRO_0000135273Add
    BLAST

    Expressioni

    Developmental stagei

    Expressed in expanding premature leaves. Decreased expression in oldest leaves. Also detected in roots.1 Publication

    Inductioni

    Oscillating expression during diurnal growth. Maximal expression in the dark period.1 Publication

    Interactioni

    Structurei

    Secondary structure

    1
    504
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi15 – 195
    Helixi23 – 3311
    Beta strandi38 – 425
    Beta strandi44 – 485
    Beta strandi54 – 574
    Beta strandi60 – 656
    Helixi74 – 829
    Helixi86 – 883
    Beta strandi98 – 10811
    Helixi113 – 1186
    Beta strandi119 – 1224
    Helixi124 – 1318
    Helixi133 – 1364
    Helixi152 – 1609
    Helixi162 – 1665
    Helixi169 – 1779
    Helixi181 – 1833
    Helixi186 – 1894
    Helixi191 – 1999
    Helixi203 – 2108
    Beta strandi236 – 2383
    Helixi243 – 2508
    Turni255 – 2573
    Beta strandi264 – 2707
    Beta strandi272 – 2776
    Beta strandi279 – 2857
    Beta strandi287 – 2904
    Beta strandi296 – 3027
    Helixi306 – 3105
    Beta strandi312 – 3209
    Beta strandi331 – 34212
    Helixi343 – 3453
    Beta strandi346 – 3483
    Beta strandi352 – 3565
    Helixi359 – 3646
    Beta strandi368 – 3736
    Helixi374 – 3774
    Helixi379 – 3813
    Beta strandi386 – 39510
    Helixi399 – 4013
    Helixi406 – 42116
    Beta strandi428 – 44013
    Helixi446 – 45914
    Beta strandi463 – 4653
    Beta strandi468 – 4714
    Helixi475 – 49319

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1SEZX-ray2.90A/B1-504[»]
    ProteinModelPortaliO24164.
    SMRiO24164. Positions 13-497.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiO24164.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the protoporphyrinogen oxidase family.Curated

    Family and domain databases

    Gene3Di3.90.660.20. 1 hit.
    InterProiIPR002937. Amino_oxidase.
    IPR027418. PPOX_C.
    IPR004572. Protoporphyrinogen_oxidase.
    [Graphical view]
    PfamiPF01593. Amino_oxidase. 1 hit.
    [Graphical view]
    TIGRFAMsiTIGR00562. proto_IX_ox. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    O24164-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAPSAGEDKH SSAKRVAVIG AGVSGLAAAY KLKIHGLNVT VFEAEGKAGG    50
    KLRSVSQDGL IWDEGANTMT ESEGDVTFLI DSLGLREKQQ FPLSQNKRYI 100
    ARNGTPVLLP SNPIDLIKSN FLSTGSKLQM LLEPILWKNK KLSQVSDSHE 150
    SVSGFFQRHF GKEVVDYLID PFVAGTCGGD PDSLSMHHSF PELWNLEKRF 200
    GSVILGAIRS KLSPKNEKKQ GPPKTSANKK RQRGSFSFLG GMQTLTDAIC 250
    KDLREDELRL NSRVLELSCS CTEDSAIDSW SIISASPHKR QSEEESFDAV 300
    IMTAPLCDVK SMKIAKRGNP FLLNFIPEVD YVPLSVVITT FKRENVKYPL 350
    EGFGVLVPSK EQQHGLKTLG TLFSSMMFPD RAPNNVYLYT TFVGGSRNRE 400
    LAKASRTELK EIVTSDLKQL LGAEGEPTYV NHLYWSKAFP LYGHNYDSVL 450
    DAIDKMEKNL PGLFYAGNHR GGLSVGKALS SGCNAADLVI SYLESVSTDS 500
    KRHC 504
    Length:504
    Mass (Da):55,407
    Last modified:January 1, 1998 - v1
    Checksum:iB85B55EC881DC00A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y13466 mRNA. Translation: CAA73866.1.
    AB020500 mRNA. Translation: BAA34712.1.
    AF044129 mRNA. Translation: AAD02291.1.
    PIRiT04076.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y13466 mRNA. Translation: CAA73866.1 .
    AB020500 mRNA. Translation: BAA34712.1 .
    AF044129 mRNA. Translation: AAD02291.1 .
    PIRi T04076.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1SEZ X-ray 2.90 A/B 1-504 [» ]
    ProteinModelPortali O24164.
    SMRi O24164. Positions 13-497.
    ModBasei Search...
    MobiDBi Search...

    Chemistry

    BindingDBi O24164.
    ChEMBLi CHEMBL1926489.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Enzyme and pathway databases

    UniPathwayi UPA00251 ; UER00324 .
    BioCyci MetaCyc:MONOMER-11759.

    Miscellaneous databases

    EvolutionaryTracei O24164.

    Family and domain databases

    Gene3Di 3.90.660.20. 1 hit.
    InterProi IPR002937. Amino_oxidase.
    IPR027418. PPOX_C.
    IPR004572. Protoporphyrinogen_oxidase.
    [Graphical view ]
    Pfami PF01593. Amino_oxidase. 1 hit.
    [Graphical view ]
    TIGRFAMsi TIGR00562. proto_IX_ox. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Cloning and characterization of a plastidal and a mitochondrial isoform of tobacco protoporphyrinogen IX oxidase."
      Lermontova I., Kruse E., Mock H.-P., Grimm B.
      Proc. Natl. Acad. Sci. U.S.A. 94:8895-8900(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, DEVELOPMENTAL STAGE, INDUCTION, SUBCELLULAR LOCATION.
      Strain: cv. SR1.
    2. "Molecular characterization of photomixotrophic cultured tobacco cells resistant to protoporphyrinogen oxidase-inhibiting herbicides."
      Watanabe N., Che F., Iwano M., Takayama S., Nakano T., Yoshida S., Isogai A.
      Plant Physiol. 118:751-758(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Strain: cv. Samsun NN.
    3. "The molecular basis of photobleaching herbicide resistance in Tobacco."
      Horikoshi M., Mametsuka K., Hirooka T.
      Submitted (JAN-1998) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Strain: cv. SR1.
    4. "Crystal structure of protoporphyrinogen IX oxidase: a key enzyme in haem and chlorophyll biosynthesis."
      Koch M., Breithaupt C., Kiefersauer R., Freigang J., Huber R., Messerschmidt A.
      EMBO J. 23:1720-1728(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.90 ANGSTROMS) IN COMPLEX WITH SYNTHETIC INHIBITOR AND FAD, IDENTIFICATION BY MASS SPECTROMETRY, COFACTOR.

    Entry informationi

    Entry nameiPPOM_TOBAC
    AccessioniPrimary (citable) accession number: O24164
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 15, 1998
    Last sequence update: January 1, 1998
    Last modified: October 1, 2014
    This is version 92 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure

    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

    External Data

    Dasty 3