PDS_ORYSJ
ID PDS_ORYSJ Reviewed; 578 AA.
AC Q0DUI8; A0A0P0VTZ9; Q10QT5; Q93Y74; Q9ZTN9;
DT 10-JUL-2007, integrated into UniProtKB/Swiss-Prot.
DT 10-JUL-2007, sequence version 2.
DT 03-AUG-2022, entry version 104.
DE RecName: Full=15-cis-phytoene desaturase, chloroplastic/chromoplastic {ECO:0000305};
DE EC=1.3.5.5 {ECO:0000250|UniProtKB:A2XDA1};
DE AltName: Full=Phytoene dehydrogenase {ECO:0000305};
DE AltName: Full=Phytoene desaturase {ECO:0000305};
DE Flags: Precursor;
GN Name=PDS; Synonyms=PDS1; OrderedLocusNames=Os03g0184000, LOC_Os03g08570;
GN ORFNames=OSJNBa0032G08.5;
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX NCBI_TaxID=39947;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16109971; DOI=10.1101/gr.3869505;
RG The rice chromosome 3 sequencing consortium;
RA Buell C.R., Yuan Q., Ouyang S., Liu J., Zhu W., Wang A., Maiti R., Haas B.,
RA Wortman J., Pertea M., Jones K.M., Kim M., Overton L., Tsitrin T.,
RA Fadrosh D., Bera J., Weaver B., Jin S., Johri S., Reardon M., Webb K.,
RA Hill J., Moffat K., Tallon L., Van Aken S., Lewis M., Utterback T.,
RA Feldblyum T., Zismann V., Iobst S., Hsiao J., de Vazeille A.R.,
RA Salzberg S.L., White O., Fraser C.M., Yu Y., Kim H., Rambo T., Currie J.,
RA Collura K., Kernodle-Thompson S., Wei F., Kudrna K., Ammiraju J.S.S.,
RA Luo M., Goicoechea J.L., Wing R.A., Henry D., Oates R., Palmer M.,
RA Pries G., Saski C., Simmons J., Soderlund C., Nelson W., de la Bastide M.,
RA Spiegel L., Nascimento L., Huang E., Preston R., Zutavern T., Palmer L.,
RA O'Shaughnessy A., Dike S., McCombie W.R., Minx P., Cordum H., Wilson R.,
RA Jin W., Lee H.R., Jiang J., Jackson S.;
RT "Sequence, annotation, and analysis of synteny between rice chromosome 3
RT and diverged grass species.";
RL Genome Res. 15:1284-1291(2005).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16100779; DOI=10.1038/nature03895;
RG International rice genome sequencing project (IRGSP);
RT "The map-based sequence of the rice genome.";
RL Nature 436:793-800(2005).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=18089549; DOI=10.1093/nar/gkm978;
RG The rice annotation project (RAP);
RT "The rice annotation project database (RAP-DB): 2008 update.";
RL Nucleic Acids Res. 36:D1028-D1033(2008).
RN [4]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using next
RT generation sequence and optical map data.";
RL Rice 6:4-4(2013).
CC -!- FUNCTION: Converts phytoene into zeta-carotene via the intermediary of
CC phytofluene by the symmetrical introduction of two double bonds at the
CC C-11 and C-11' positions of phytoene with a concomitant isomerization
CC of two neighboring double bonds at the C9 and C9' positions from trans
CC to cis. {ECO:0000250|UniProtKB:A2XDA1}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=15-cis-phytoene + 2 a plastoquinone = 9,9',15-tri-cis-zeta-
CC carotene + 2 a plastoquinol; Xref=Rhea:RHEA:30287, Rhea:RHEA-
CC COMP:9561, Rhea:RHEA-COMP:9562, ChEBI:CHEBI:17757, ChEBI:CHEBI:27787,
CC ChEBI:CHEBI:48717, ChEBI:CHEBI:62192; EC=1.3.5.5;
CC Evidence={ECO:0000250|UniProtKB:A2XDA1};
CC -!- COFACTOR:
CC Name=FAD; Xref=ChEBI:CHEBI:57692;
CC Evidence={ECO:0000250|UniProtKB:A2XDA1};
CC -!- ACTIVITY REGULATION: Inhibited by the herbicide norflurazon (NFZ).
CC {ECO:0000250|UniProtKB:A2XDA1}.
CC -!- PATHWAY: Carotenoid biosynthesis; lycopene biosynthesis.
CC -!- SUBUNIT: Homotetramer. Homotetramer is the active form of the enzyme.
CC {ECO:0000250|UniProtKB:A2XDA1}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast
CC {ECO:0000250|UniProtKB:Q40406}. Plastid, chromoplast
CC {ECO:0000250|UniProtKB:Q40406}. Membrane
CC {ECO:0000250|UniProtKB:A2XDA1}; Peripheral membrane protein
CC {ECO:0000250|UniProtKB:A2XDA1}.
CC -!- SIMILARITY: Belongs to the carotenoid/retinoid oxidoreductase family.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAF11100.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR EMBL; AC079633; AAK92625.1; -; Genomic_DNA.
DR EMBL; DP000009; ABF94340.1; -; Genomic_DNA.
DR EMBL; AP008209; BAF11100.1; ALT_INIT; Genomic_DNA.
DR EMBL; AP014959; BAS82656.1; -; Genomic_DNA.
DR RefSeq; XP_015633101.1; XM_015777615.1.
DR AlphaFoldDB; Q0DUI8; -.
DR SMR; Q0DUI8; -.
DR STRING; 4530.OS03T0184000-00; -.
DR PaxDb; Q0DUI8; -.
DR PRIDE; Q0DUI8; -.
DR EnsemblPlants; Os03t0184000-00; Os03t0184000-00; Os03g0184000.
DR GeneID; 4331854; -.
DR Gramene; Os03t0184000-00; Os03t0184000-00; Os03g0184000.
DR KEGG; osa:4331854; -.
DR eggNOG; KOG0029; Eukaryota.
DR HOGENOM; CLU_022687_1_0_1; -.
DR InParanoid; Q0DUI8; -.
DR OMA; THCFFGA; -.
DR OrthoDB; 1151887at2759; -.
DR UniPathway; UPA00803; -.
DR Proteomes; UP000000763; Chromosome 3.
DR Proteomes; UP000059680; Chromosome 3.
DR GO; GO:0009507; C:chloroplast; ISS:UniProtKB.
DR GO; GO:0009509; C:chromoplast; ISS:UniProtKB.
DR GO; GO:0016020; C:membrane; IEA:UniProtKB-SubCell.
DR GO; GO:0071949; F:FAD binding; ISS:UniProtKB.
DR GO; GO:0016491; F:oxidoreductase activity; IBA:GO_Central.
DR GO; GO:0016166; F:phytoene dehydrogenase activity; ISS:UniProtKB.
DR GO; GO:0016120; P:carotene biosynthetic process; ISS:UniProtKB.
DR GO; GO:0016117; P:carotenoid biosynthetic process; IBA:GO_Central.
DR GO; GO:0051289; P:protein homotetramerization; ISS:UniProtKB.
DR Gene3D; 3.50.50.60; -; 1.
DR InterPro; IPR002937; Amino_oxidase.
DR InterPro; IPR036188; FAD/NAD-bd_sf.
DR InterPro; IPR014102; Phytoene_desaturase.
DR Pfam; PF01593; Amino_oxidase; 1.
DR SUPFAM; SSF51905; SSF51905; 1.
DR TIGRFAMs; TIGR02731; phytoene_desat; 1.
PE 3: Inferred from homology;
KW Carotenoid biosynthesis; Chloroplast; Chromoplast; FAD; Flavoprotein;
KW Membrane; Oxidoreductase; Plastid; Reference proteome; Transit peptide.
FT TRANSIT 1..87
FT /note="Chloroplast and chromoplast"
FT /evidence="ECO:0000255"
FT CHAIN 88..578
FT /note="15-cis-phytoene desaturase,
FT chloroplastic/chromoplastic"
FT /id="PRO_0000006327"
FT BINDING 115
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250|UniProtKB:A2XDA1"
FT BINDING 134..135
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250|UniProtKB:A2XDA1"
FT BINDING 142
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250|UniProtKB:A2XDA1"
FT BINDING 159..160
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250|UniProtKB:A2XDA1"
FT BINDING 165
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250|UniProtKB:A2XDA1"
FT BINDING 300
FT /ligand="substrate"
FT /evidence="ECO:0000250|UniProtKB:A2XDA1"
FT BINDING 342
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250|UniProtKB:A2XDA1"
FT BINDING 531
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250|UniProtKB:A2XDA1"
FT BINDING 539
FT /ligand="substrate"
FT /evidence="ECO:0000250|UniProtKB:A2XDA1"
FT BINDING 541
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250|UniProtKB:A2XDA1"
SQ SEQUENCE 578 AA; 64770 MW; 6561B0DE071282EF CRC64;
MDTGCLSSMN ITGTSQARSF AGQLPTHRCF ASSSIQALKS SQHVSFGVKS LVLRNKGKRF
RRRLGALQVV CQDFPRPPLE NTINFLEAGQ LSSFFRNSEQ PTKPLQVVIA GAGLAGLSTA
KYLADAGHKP ILLEARDVLG GKIAAWKDED GDWYETGLHI FFGAYPNIQN LFGELGINDR
LQWKEHSMIF AMPNKPGEFS RFDFPETLPA PLNGIWAILR NNEMLTWPEK VKFALGLLPA
MVGGQAYVEA QDGFTVSEWM KKQGVPDRVN DEVFIAMSKA LNFINPDELS MQCILIALNR
FLQEKHGSKM AFLDGNPPER LCMPIVDHVR SLGGEVRLNS RIQKIELNPD GTVKHFALTD
GTQITGDAYV FATPVDILKL LVPQEWKEIS YFKKLEKLVG VPVINVHIWF DRKLKNTYDH
LLFSRSSLLS VYADMSVTCK EYYDPNRSML ELVFAPAEEW VGRSDTEIIE ATMQELAKLF
PDEIAADQSK AKILKYHVVK TPRSVYKTIP DCEPCRPLQR SPIEGFYLAG DYTKQKYLAS
MEGAVLSGKL CAQSVVEDYK MLSRRSLKSL QSEVPVAS
