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Protein

Protoporphyrinogen oxidase 2, chloroplastic/mitochondrial

Gene

PPOX2

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the 6-electron oxidation of protoporphyrinogen-IX to form protoporphyrin-IX.By similarity

Catalytic activityi

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

Cofactori

FADBy similarityNote: Binds 1 FAD per subunit.By similarity

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei268 – 2681FAD; via amide nitrogen and carbonyl oxygenBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi23 – 286FADBy similarity
Nucleotide bindingi46 – 472FADBy similarity
Nucleotide bindingi68 – 714FADBy similarity
Nucleotide bindingi475 – 4773FADBy similarity

GO - Molecular functioni

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

GO - Biological processi

  1. chlorophyll biosynthetic process Source: UniProtKB-UniPathway
  2. embryo development ending in seed dormancy Source: TAIR
  3. protoporphyrinogen IX biosynthetic process Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Chlorophyll biosynthesis, Heme biosynthesis, Porphyrin biosynthesis

Keywords - Ligandi

FAD, Flavoprotein

Enzyme and pathway databases

BioCyciARA:AT5G14220-MONOMER.
ARA:GQT-1544-MONOMER.
ReactomeiREACT_340934. Heme biosynthesis.
UniPathwayiUPA00251; UER00324.
UPA00668.

Names & Taxonomyi

Protein namesi
Recommended name:
Protoporphyrinogen oxidase 2, chloroplastic/mitochondrial (EC:1.3.3.4)
Short name:
PPO2
Alternative name(s):
Protein MATERNAL EFFECT EMBRYO ARREST 61
Gene namesi
Name:PPOX2
Synonyms:HEMG2, MEE61, PPO2
Ordered Locus Names:At5g14220
ORF Names:F18O22.10, MUA22.22
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G14220.

Subcellular locationi

GO - Cellular componenti

  1. chloroplast Source: TAIR
  2. chloroplast envelope Source: TAIR
  3. mitochondrion Source: TAIR
  4. plastid Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Mitochondrion, Plastid

Pathology & Biotechi

Disruption phenotypei

Embryo development arrested at one-cell zygotic stage.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 2222Chloroplast and mitochondrionSequence AnalysisAdd
BLAST
Chaini23 – 508486Protoporphyrinogen oxidase 2, chloroplastic/mitochondrialPRO_0000422669Add
BLAST

Proteomic databases

PRIDEiQ8S9J1.
ProMEXiQ8S9J1.

Expressioni

Gene expression databases

GenevestigatoriQ8S9J1.

Interactioni

Protein-protein interaction databases

STRINGi3702.AT5G14220.1-P.

Structurei

3D structure databases

ProteinModelPortaliQ8S9J1.
SMRiQ8S9J1. Positions 16-499.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the protoporphyrinogen oxidase family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG1232.
HOGENOMiHOG000269479.
InParanoidiQ8S9J1.
KOiK00231.
OMAiKQQFPIS.
PhylomeDBiQ8S9J1.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
3.90.660.20. 1 hit.
InterProiIPR002937. Amino_oxidase.
IPR016040. NAD(P)-bd_dom.
IPR027418. PPOX_C.
IPR004572. Protoporphyrinogen_oxidase.
[Graphical view]
PfamiPF01593. Amino_oxidase. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00562. proto_IX_ox. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8S9J1-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MASGAVADHQ IEAVSGKRVA VVGAGVSGLA AAYKLKSRGL NVTVFEADGR
60 70 80 90 100
VGGKLRSVMQ NGLIWDEGAN TMTEAEPEVG SLLDDLGLRE KQQFPISQKK
110 120 130 140 150
RYIVRNGVPV MLPTNPIELV TSSVLSTQSK FQILLEPFLW KKKSSKVSDA
160 170 180 190 200
SAEESVSEFF QRHFGQEVVD YLIDPFVGGT SAADPDSLSM KHSFPDLWNV
210 220 230 240 250
EKSFGSIIVG AIRTKFAAKG GKSRDTKSSP GTKKGSRGSF SFKGGMQILP
260 270 280 290 300
DTLCKSLSHD EINLDSKVLS LSYNSGSRQE NWSLSCVSHN ETQRQNPHYD
310 320 330 340 350
AVIMTAPLCN VKEMKVMKGG QPFQLNFLPE INYMPLSVLI TTFTKEKVKR
360 370 380 390 400
PLEGFGVLIP SKEQKHGFKT LGTLFSSMMF PDRSPSDVHL YTTFIGGSRN
410 420 430 440 450
QELAKASTDE LKQVVTSDLQ RLLGVEGEPV SVNHYYWRKA FPLYDSSYDS
460 470 480 490 500
VMEAIDKMEN DLPGFFYAGN HRGGLSVGKS IASGCKAADL VISYLESCSN

DKKPNDSL
Length:508
Mass (Da):55,630
Last modified:June 1, 2002 - v1
Checksum:iF092957F1F3DD268
GO
Isoform 2 (identifier: Q8S9J1-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     112-141: Missing.

Show »
Length:478
Mass (Da):52,218
Checksum:iEEB49AD0E4D8F129
GO

Sequence cautioni

The sequence BAB08301.1 differs from that shown. Reason: Erroneous gene model prediction. Curated
The sequence CAB87761.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei112 – 14130Missing in isoform 2. CuratedVSP_046550Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB007650 Genomic DNA. Translation: BAB08301.1. Sequence problems.
AL163817 Genomic DNA. Translation: CAB87761.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED92001.1.
CP002688 Genomic DNA. Translation: AED92002.1.
AY075665 mRNA. Translation: AAL77672.1.
AY101523 mRNA. Translation: AAM26644.1.
PIRiT48595.
RefSeqiNP_001190307.1. NM_001203378.1. [Q8S9J1-2]
NP_196926.2. NM_121426.4. [Q8S9J1-1]
UniGeneiAt.20436.

Genome annotation databases

EnsemblPlantsiAT5G14220.1; AT5G14220.1; AT5G14220. [Q8S9J1-1]
GeneIDi831272.
KEGGiath:AT5G14220.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB007650 Genomic DNA. Translation: BAB08301.1. Sequence problems.
AL163817 Genomic DNA. Translation: CAB87761.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED92001.1.
CP002688 Genomic DNA. Translation: AED92002.1.
AY075665 mRNA. Translation: AAL77672.1.
AY101523 mRNA. Translation: AAM26644.1.
PIRiT48595.
RefSeqiNP_001190307.1. NM_001203378.1. [Q8S9J1-2]
NP_196926.2. NM_121426.4. [Q8S9J1-1]
UniGeneiAt.20436.

3D structure databases

ProteinModelPortaliQ8S9J1.
SMRiQ8S9J1. Positions 16-499.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT5G14220.1-P.

Proteomic databases

PRIDEiQ8S9J1.
ProMEXiQ8S9J1.

Protocols and materials databases

DNASUi831272.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G14220.1; AT5G14220.1; AT5G14220. [Q8S9J1-1]
GeneIDi831272.
KEGGiath:AT5G14220.

Organism-specific databases

TAIRiAT5G14220.

Phylogenomic databases

eggNOGiCOG1232.
HOGENOMiHOG000269479.
InParanoidiQ8S9J1.
KOiK00231.
OMAiKQQFPIS.
PhylomeDBiQ8S9J1.

Enzyme and pathway databases

UniPathwayiUPA00251; UER00324.
UPA00668.
BioCyciARA:AT5G14220-MONOMER.
ARA:GQT-1544-MONOMER.
ReactomeiREACT_340934. Heme biosynthesis.

Miscellaneous databases

PROiQ8S9J1.

Gene expression databases

GenevestigatoriQ8S9J1.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
3.90.660.20. 1 hit.
InterProiIPR002937. Amino_oxidase.
IPR016040. NAD(P)-bd_dom.
IPR027418. PPOX_C.
IPR004572. Protoporphyrinogen_oxidase.
[Graphical view]
PfamiPF01593. Amino_oxidase. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00562. proto_IX_ox. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Structural analysis of Arabidopsis thaliana chromosome 5. III. Sequence features of the regions of 1,191,918 bp covered by seventeen physically assigned P1 clones."
    Nakamura Y., Sato S., Kaneko T., Kotani H., Asamizu E., Miyajima N., Tabata S.
    DNA Res. 4:401-414(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. "Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana."
    Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E., Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K.
    , Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L., O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D., Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M., Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L., Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B., Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P., Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M., Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D., Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A., Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I., Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T., Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A., McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U., Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M., Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G., Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W., Bevan M., Fransz P.F.
    Nature 408:823-826(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Strain: cv. Columbia.
  5. "Genetic and molecular identification of genes required for female gametophyte development and function in Arabidopsis."
    Pagnussat G.C., Yu H.-J., Ngo Q.A., Rajani S., Mayalagu S., Johnson C.S., Capron A., Xie L.-F., Ye D., Sundaresan V.
    Development 132:603-614(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE.
  6. "Sorting signals, N-terminal modifications and abundance of the chloroplast proteome."
    Zybailov B., Rutschow H., Friso G., Rudella A., Emanuelsson O., Sun Q., van Wijk K.J.
    PLoS ONE 3:E1994-E1994(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY, SUBCELLULAR LOCATION.
  7. "Defining the protein complex proteome of plant mitochondria."
    Klodmann J., Senkler M., Rode C., Braun H.-P.
    Plant Physiol. 157:587-598(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY, SUBCELLULAR LOCATION.
  8. "Comparative large-scale characterisation of plant vs. mammal proteins reveals similar and idiosyncratic N-alpha acetylation features."
    Bienvenut W.V., Sumpton D., Martinez A., Lilla S., Espagne C., Meinnel T., Giglione C.
    Mol. Cell. Proteomics 11:M111.015131-M111.015131(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiPPOCM_ARATH
AccessioniPrimary (citable) accession number: Q8S9J1
Secondary accession number(s): F4K5H8, Q9FMS9, Q9LYA7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 26, 2013
Last sequence update: June 1, 2002
Last modified: April 29, 2015
This is version 83 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

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.