ID Q6XFQ2_MAIZE Unreviewed; 1166 AA.
AC Q6XFQ2;
DT 05-JUL-2004, integrated into UniProtKB/TrEMBL.
DT 05-JUL-2004, sequence version 1.
DT 27-MAR-2024, entry version 147.
DE RecName: Full=Phytochrome {ECO:0000256|PIRNR:PIRNR000084};
GN Name=phyB2 {ECO:0000313|EMBL:AAP06789.1};
GN Synonyms=100381811 {ECO:0000313|EnsemblPlants:Zm00001eb396030_P001};
GN ORFNames=ZEAMMB73_Zm00001d047632 {ECO:0000313|EMBL:AQL07142.1};
OS Zea mays (Maize).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; PACMAD clade;
OC Panicoideae; Andropogonodae; Andropogoneae; Tripsacinae; Zea.
OX NCBI_TaxID=4577 {ECO:0000313|EMBL:AAP06789.1};
RN [1] {ECO:0000313|EMBL:AAP06789.1}
RP NUCLEOTIDE SEQUENCE.
RX PubMed=15280251; DOI=10.1534/genetics.103.026096;
RA Sheehan M.J., Farmer P.R., Brutnell T.P.;
RT "Structure and expression of maize phytochrome family homeologs.";
RL Genetics 167:1395-1405(2004).
RN [2] {ECO:0000313|EnsemblPlants:Zm00001eb396030_P001, ECO:0000313|Proteomes:UP000007305}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. B73 {ECO:0000313|EnsemblPlants:Zm00001eb396030_P001,
RC ECO:0000313|Proteomes:UP000007305};
RX PubMed=19965430; DOI=10.1126/science.1178534;
RA Schnable P.S., Ware D., Fulton R.S., Stein J.C., Wei F., Pasternak S.,
RA Liang C., Zhang J., Fulton L., Graves T.A., Minx P., Reily A.D.,
RA Courtney L., Kruchowski S.S., Tomlinson C., Strong C., Delehaunty K.,
RA Fronick C., Courtney B., Rock S.M., Belter E., Du F., Kim K., Abbott R.M.,
RA Cotton M., Levy A., Marchetto P., Ochoa K., Jackson S.M., Gillam B.,
RA Chen W., Yan L., Higginbotham J., Cardenas M., Waligorski J., Applebaum E.,
RA Phelps L., Falcone J., Kanchi K., Thane T., Scimone A., Thane N., Henke J.,
RA Wang T., Ruppert J., Shah N., Rotter K., Hodges J., Ingenthron E.,
RA Cordes M., Kohlberg S., Sgro J., Delgado B., Mead K., Chinwalla A.,
RA Leonard S., Crouse K., Collura K., Kudrna D., Currie J., He R.,
RA Angelova A., Rajasekar S., Mueller T., Lomeli R., Scara G., Ko A.,
RA Delaney K., Wissotski M., Lopez G., Campos D., Braidotti M., Ashley E.,
RA Golser W., Kim H., Lee S., Lin J., Dujmic Z., Kim W., Talag J., Zuccolo A.,
RA Fan C., Sebastian A., Kramer M., Spiegel L., Nascimento L., Zutavern T.,
RA Miller B., Ambroise C., Muller S., Spooner W., Narechania A., Ren L.,
RA Wei S., Kumari S., Faga B., Levy M.J., McMahan L., Van Buren P.,
RA Vaughn M.W., Ying K., Yeh C.-T., Emrich S.J., Jia Y., Kalyanaraman A.,
RA Hsia A.-P., Barbazuk W.B., Baucom R.S., Brutnell T.P., Carpita N.C.,
RA Chaparro C., Chia J.-M., Deragon J.-M., Estill J.C., Fu Y., Jeddeloh J.A.,
RA Han Y., Lee H., Li P., Lisch D.R., Liu S., Liu Z., Nagel D.H., McCann M.C.,
RA SanMiguel P., Myers A.M., Nettleton D., Nguyen J., Penning B.W.,
RA Ponnala L., Schneider K.L., Schwartz D.C., Sharma A., Soderlund C.,
RA Springer N.M., Sun Q., Wang H., Waterman M., Westerman R., Wolfgruber T.K.,
RA Yang L., Yu Y., Zhang L., Zhou S., Zhu Q., Bennetzen J.L., Dawe R.K.,
RA Jiang J., Jiang N., Presting G.G., Wessler S.R., Aluru S.,
RA Martienssen R.A., Clifton S.W., McCombie W.R., Wing R.A., Wilson R.K.;
RT "The B73 maize genome: complexity, diversity, and dynamics.";
RL Science 326:1112-1115(2009).
RN [3] {ECO:0000313|EMBL:AQL07142.1}
RP NUCLEOTIDE SEQUENCE.
RC TISSUE=Seedling {ECO:0000313|EMBL:AQL07142.1};
RG Maize Genome Sequencing Project;
RA Ware D.;
RT "Update maize B73 reference genome by single molecule sequencing
RT technologies.";
RL Submitted (DEC-2015) to the EMBL/GenBank/DDBJ databases.
RN [4] {ECO:0000313|EnsemblPlants:Zm00001eb396030_P001}
RP IDENTIFICATION.
RC STRAIN=cv. B73 {ECO:0000313|EnsemblPlants:Zm00001eb396030_P001};
RG EnsemblPlants;
RL Submitted (MAY-2021) to UniProtKB.
CC -!- FUNCTION: Regulatory photoreceptor which exists in two forms that are
CC reversibly interconvertible by light: the Pr form that absorbs
CC maximally in the red region of the spectrum and the Pfr form that
CC absorbs maximally in the far-red region. Photoconversion of Pr to Pfr
CC induces an array of morphogenic responses, whereas reconversion of Pfr
CC to Pr cancels the induction of those responses. Pfr controls the
CC expression of a number of nuclear genes including those encoding the
CC small subunit of ribulose-bisphosphate carboxylase, chlorophyll A/B
CC binding protein, protochlorophyllide reductase, rRNA, etc. It also
CC controls the expression of its own gene(s) in a negative feedback
CC fashion. {ECO:0000256|ARBA:ARBA00002479}.
CC -!- SUBUNIT: Homodimer. {ECO:0000256|ARBA:ARBA00011738}.
CC -!- PTM: Contains one covalently linked phytochromobilin chromophore.
CC {ECO:0000256|PIRSR:PIRSR000084-50}.
CC -!- SIMILARITY: Belongs to the phytochrome family.
CC {ECO:0000256|ARBA:ARBA00008235, ECO:0000256|PIRNR:PIRNR000084}.
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DR EMBL; AY234828; AAP06789.1; -; Genomic_DNA.
DR EMBL; CM000785; AQL07142.1; -; Genomic_DNA.
DR RefSeq; NP_001168077.1; NM_001174606.1.
DR AlphaFoldDB; Q6XFQ2; -.
DR SMR; Q6XFQ2; -.
DR IntAct; Q6XFQ2; 5.
DR STRING; 4577.Q6XFQ2; -.
DR PaxDb; 4577-GRMZM2G092174_P01; -.
DR EnsemblPlants; Zm00001eb396030_T001; Zm00001eb396030_P001; Zm00001eb396030.
DR GeneID; 100381811; -.
DR Gramene; Zm00001eb396030_T001; Zm00001eb396030_P001; Zm00001eb396030.
DR KEGG; zma:100381811; -.
DR eggNOG; ENOG502QRNS; Eukaryota.
DR HOGENOM; CLU_010418_0_0_1; -.
DR InParanoid; Q6XFQ2; -.
DR OrthoDB; 1770905at2759; -.
DR Proteomes; UP000007305; Chromosome 9.
DR ExpressionAtlas; Q6XFQ2; baseline and differential.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0000155; F:phosphorelay sensor kinase activity; IEA:InterPro.
DR GO; GO:0009881; F:photoreceptor activity; IEA:UniProtKB-KW.
DR GO; GO:0042803; F:protein homodimerization activity; IEA:InterPro.
DR GO; GO:0009584; P:detection of visible light; IEA:InterPro.
DR GO; GO:0009585; P:red, far-red light phototransduction; IEA:InterPro.
DR GO; GO:0006355; P:regulation of DNA-templated transcription; IEA:InterPro.
DR CDD; cd00082; HisKA; 1.
DR CDD; cd00130; PAS; 2.
DR Gene3D; 1.10.287.130; -; 1.
DR Gene3D; 3.30.450.270; -; 1.
DR Gene3D; 3.30.450.40; -; 1.
DR Gene3D; 3.30.565.10; Histidine kinase-like ATPase, C-terminal domain; 1.
DR Gene3D; 3.30.450.20; PAS domain; 3.
DR InterPro; IPR003018; GAF.
DR InterPro; IPR029016; GAF-like_dom_sf.
DR InterPro; IPR003594; HATPase_C.
DR InterPro; IPR036890; HATPase_C_sf.
DR InterPro; IPR005467; His_kinase_dom.
DR InterPro; IPR003661; HisK_dim/P.
DR InterPro; IPR036097; HisK_dim/P_sf.
DR InterPro; IPR000014; PAS.
DR InterPro; IPR035965; PAS-like_dom_sf.
DR InterPro; IPR013654; PAS_2.
DR InterPro; IPR013767; PAS_fold.
DR InterPro; IPR016132; Phyto_chromo_attachment.
DR InterPro; IPR013516; Phyto_chromo_BS.
DR InterPro; IPR001294; Phytochrome.
DR InterPro; IPR012129; Phytochrome_A-E.
DR InterPro; IPR013515; Phytochrome_cen-reg.
DR InterPro; IPR043150; Phytochrome_PHY_sf.
DR NCBIfam; TIGR00229; sensory_box; 2.
DR PANTHER; PTHR47876; OS08G0260000 PROTEIN; 1.
DR PANTHER; PTHR47876:SF3; PHYTOCHROME 1; 1.
DR Pfam; PF01590; GAF; 1.
DR Pfam; PF02518; HATPase_c; 1.
DR Pfam; PF00512; HisKA; 1.
DR Pfam; PF00989; PAS; 2.
DR Pfam; PF08446; PAS_2; 1.
DR Pfam; PF00360; PHY; 1.
DR PIRSF; PIRSF000084; Phytochrome; 1.
DR PRINTS; PR01033; PHYTOCHROME.
DR SMART; SM00065; GAF; 1.
DR SMART; SM00387; HATPase_c; 1.
DR SMART; SM00388; HisKA; 1.
DR SMART; SM00091; PAS; 2.
DR SUPFAM; SSF55874; ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase; 1.
DR SUPFAM; SSF55781; GAF domain-like; 2.
DR SUPFAM; SSF47384; Homodimeric domain of signal transducing histidine kinase; 1.
DR SUPFAM; SSF55785; PYP-like sensor domain (PAS domain); 3.
DR PROSITE; PS50109; HIS_KIN; 1.
DR PROSITE; PS50112; PAS; 2.
DR PROSITE; PS00245; PHYTOCHROME_1; 1.
DR PROSITE; PS50046; PHYTOCHROME_2; 1.
PE 1: Evidence at protein level;
KW Chromophore {ECO:0000256|ARBA:ARBA00022991, ECO:0000256|PIRNR:PIRNR000084};
KW Photoreceptor protein {ECO:0000256|ARBA:ARBA00022543,
KW ECO:0000256|PIRNR:PIRNR000084};
KW Proteomics identification {ECO:0007829|PeptideAtlas:Q6XFQ2};
KW Receptor {ECO:0000256|ARBA:ARBA00023170, ECO:0000256|PIRNR:PIRNR000084};
KW Reference proteome {ECO:0000313|Proteomes:UP000007305};
KW Repeat {ECO:0000256|ARBA:ARBA00022737};
KW Sensory transduction {ECO:0000256|ARBA:ARBA00022606,
KW ECO:0000256|PIRNR:PIRNR000084};
KW Transcription {ECO:0000256|ARBA:ARBA00023163,
KW ECO:0000256|PIRNR:PIRNR000084};
KW Transcription regulation {ECO:0000256|ARBA:ARBA00023015,
KW ECO:0000256|PIRNR:PIRNR000084}.
FT DOMAIN 252..424
FT /note="Phytochrome chromophore attachment site"
FT /evidence="ECO:0000259|PROSITE:PS50046"
FT DOMAIN 653..724
FT /note="PAS"
FT /evidence="ECO:0000259|PROSITE:PS50112"
FT DOMAIN 787..839
FT /note="PAS"
FT /evidence="ECO:0000259|PROSITE:PS50112"
FT DOMAIN 935..1155
FT /note="Histidine kinase"
FT /evidence="ECO:0000259|PROSITE:PS50109"
FT REGION 1..48
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 13..27
FT /note="Basic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 357
FT /ligand="phytochromobilin"
FT /ligand_id="ChEBI:CHEBI:189064"
FT /note="covalent"
FT /evidence="ECO:0000256|PIRSR:PIRSR000084-50"
SQ SEQUENCE 1166 AA; 128300 MW; 5B89C21E3B68EAE0 CRC64;
MASDSRPPKR SPSARRVAPR HAHHHHSQSS GGSTSRAGAG GGGGGAAATE SVSKAVAQYN
LDARLHAVFE QSGASGRSFD YSQSLRAPPT PSSEQQIAAY LSRIQRGGHI QPLGCTLAVA
DDSSFRLLAF SENAADLLDL SPHHSVPSLD SVALPPVSLG ADARLYFSPS SAVLLERAFA
AREISLLNPL WIHSRASSKP FYAILHRIDV GVVIDLEPAR TEDPALSIAG AVQSQKLAVR
AISRLQALPG GDVKLLCDTV VEHVRELTGY DRVMVYKFHE DEHGEVVAES RRDNLEPYLG
LHYPATDIPQ ASRFLFQQNR VRMIADCHAI PVRVIQDPGL SQQLCLVGST LRAPHGCHAQ
YMANMGSIAS LVMAVIISSG GDDERTGRGA ISSSMKLWGL VVCHHTSPRC IPFPLRYACE
FLMQAFGLQL NMELQLAHQL SEKHILRTQT LLCDMLLRDS PAGIITQSPS VMDLVKCDGA
ALYYRGKYYP LGVTPTESQI KDIIEWLTVC HGDSTGLSTD SLADAGYLGA VALGDAVCGM
AVAYITPSDY LFWFRSHTAK EIKWGGAKHH PEDKDDGQRM HPRSSFKAFL EVVKSRSLSW
ENAEMDAIHS LQLILRDSFR DAAEGTSNSK AIVNGQRQLG ELELRGINEL SSVAREMVRL
IETATVPIFA VDTDGCINGW NAKIAELTGL SVEEAMGKSL VNDLIFKECD DIVEKLLSRA
LRGEEDKNVE IKLKTFGSEQ SKGAIFVIVN ACSSRDYTQN IVGVCFVGQD VTGQKVVMDK
FINIQGDYKA IVHNPNPLLP PIFASDENTS CSEWNTAMEK LTGWSREEVV GKFLIGEVFG
NCCRLKGPDA LTKFMVVIHN AIEGHDSEKF PFSFFDKNGK YVQALLTANT RSKMDGKSIG
AFCFLQIASA EIQQAFEIQR QQEKKCYARM KELAYICQEI KNPLSGIRFT NSLLQMTDLN
DDQRQFLETS SACEKQMSKI VKDASLKSIE DGSLVLEKSE FSLGDVMNAV VSQTMSLLRE
RDLQLIRDIP DEIKDASAYG DQFRIQQVLA DFLLSMAQSA PSENGWVEIQ VRPNVKQNYD
GTDTELFIFR FACPGEGLPA DIVQDMFSNS QWSTQEGVGL STCRKILKLM GGEVQYIRES
ERSFFLIVLE LPQPRLAAGR ENQLIC
//
