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UniProtKB/Swiss-Prot entry Q10CQ8


[Entry info] [Name and origin] [References] [Comments] [Cross-references] [Keywords] [Features] [Sequence] [Tools]

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Entry information
Entry name PHYC_ORYSJ
Primary accession number Q10CQ8
Secondary accession numbers P93429 Q10CQ9 Q7FUM6 Q9M7A9 Q9ZWI9
Integrated into Swiss-Prot on September 11, 2007
Sequence was last modified on August 22, 2006 (Sequence version 1)
Annotations were last modified on    July 22, 2008 (Entry version 23)
Name and origin of the protein
Protein name Phytochrome C
Synonyms None
Gene name
Name: PHYC
OrderedLocusNames: Os03g0752100, LOC_Os03g54084
ORFNames: OJ1112_G08.5, OSJNBa0032E21.08, OSJNBa0047E24.9, OsJ_012088
From
Oryza sativa subsp. japonica (Rice) [TaxID: 39947] 
Taxonomy Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP clade; Ehrhartoideae; Oryzeae; Oryza.
Protein existence 2: Evidence at transcript level;
References
[1]
NUCLEOTIDE SEQUENCE [MRNA].
STRAIN=cv. Nipponbare;
Tahir M., Kanegae H., Takano M.;
"Phytochrome C (PHYC) gene in rice: isolation and characterization of a complete coding sequence.";
(er) Plant Gene Register PGR98-210.
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=cv. Nipponbare;
DOI=10.1101/gr.3869505; PubMed=16109971 [NCBI, ExPASy, EBI, Israel, Japan]
The rice chromosome 3 sequencing consortium;
Buell C.R., Yuan Q., Ouyang S., Liu J., Zhu W., Wang A., Maiti R., Haas B., Wortman J., Pertea M., Jones K.M., Kim M., Overton L., Tsitrin T., Fadrosh D., Bera J., Weaver B., Jin S., Johri S., Reardon M., Webb K., Hill J., Moffat K., Tallon L., Van Aken S., Lewis M., Utterback T., Feldblyum T., Zismann V., Iobst S., Hsiao J., de Vazeille A.R., Salzberg S.L., White O., Fraser C.M., Yu Y., Kim H.-I., Rambo T., Currie J., Collura K., Kernodle-Thompson S., Wei F., Kudrna K., Ammiraju J.S.S., Luo M., Goicoechea J.L., Wing R.A., Henry D., Oates R., Palmer M., Pries G., Saski C., Simmons J., Soderlund C., Nelson W., de la Bastide M., Spiegel L., Nascimento L., Huang E., Preston R., Zutavern T., Palmer L., O'Shaughnessy A., Dike S., McCombie W.R., Minx P., Cordum H., Wilson R., Jin W., Lee H.R., Jiang J., Jackson S.;
"Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species.";
Genome Res. 15:1284-1291(2005).
[3]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=cv. Nipponbare;
DOI=10.1038/nature03895; PubMed=16100779 [NCBI, ExPASy, EBI, Israel, Japan]
International rice genome sequencing project (IRGSP);
"The map-based sequence of the rice genome.";
Nature 436:793-800(2005).
[4]
GENOME REANNOTATION.
STRAIN=cv. Nipponbare;
DOI=10.1101/gr.5509507; PubMed=17210932 [NCBI, ExPASy, EBI, Israel, Japan]
The rice annotation project (RAP);
"Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana.";
Genome Res. 17:175-183(2007).
[5]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=cv. Nipponbare;
DOI=10.1371/journal.pbio.0030038; PubMed=15685292 [NCBI, ExPASy, EBI, Israel, Japan]
Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S., Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L., Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J., Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X., Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y., Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L., Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H., Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z., Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L., Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F., Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q., Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J., Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M., McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.;
"The genomes of Oryza sativa: a history of duplications.";
PLoS Biol. 3:266-281(2005).
[6]
NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 275-378.
PubMed=8865668 [NCBI, ExPASy, EBI, Israel, Japan]
Mathews S., Sharrock R.A.;
"The phytochrome gene family in grasses (Poaceae): a phylogeny and evidence that grasses have a subset of the loci found in dicot angiosperms.";
Mol. Biol. Evol. 13:1141-1150(1996).
Comments
Copyright
Copyrighted by the UniProt Consortium, see http://www.uniprot.org/terms. Distributed under the Creative Commons Attribution-NoDerivs License.
Cross-references
Sequence databases
EMBL
AB018442; BAA74448.1; -; mRNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
AC092556; AAR87239.1; -; Genomic_DNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
AC135225; AAP68360.1; -; Genomic_DNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
AF377947; AAM34402.1; -; Genomic_DNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
DP000009; ABF98915.1; -; Genomic_DNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
DP000009; ABF98917.1; ALT_SEQ; Genomic_DNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
AP008209; BAF13210.1; -; Genomic_DNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
CM000140; EAZ28605.1; -; Genomic_DNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
U61207; AAB41996.1; -; Genomic_DNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
PIR T04149; T04149.
RefSeq NP_001051296.1; -.
UniGene Os.3383
3D structure databases
ModBase Q10CQ8.
Organism-specific databases
Gramene Q9ZWI9; -.
Family and domain databases
InterPro IPR003594; ATP_bd_ATPase.
IPR003018; GAF.
IPR001610; PAC.
IPR000014; PAS.
IPR013654; PAS_2.
IPR013767; PAS_fold.
IPR016132; Phyto_chromo_attachment.
IPR013516; Phyto_chromo_BS.
IPR001294; Phytochrome.
IPR012129; Phytochrome_A-E.
IPR013515; Phytochrome_Cr.
IPR003661; Sig_transdc_His_kin_sub1_dim/P.
IPR005467; Sig_transdc_His_kinase_core.
Graphical view of domain structure.
Gene3D G3DSA:3.30.565.10; ATP_bd_ATPase; 1.
Pfam PF01590; GAF; 1.
PF02518; HATPase_c; 1.
PF00512; HisKA; 1.
PF00989; PAS; 2.
PF08446; PAS_2; 1.
PF00360; Phytochrome; 1.
Pfam graphical view of domain structure.
PIRSF PIRSF000084; Phytochrome; 1.
PRINTS PR01033; PHYTOCHROME.
SMART SM00065; GAF; 1.
SM00387; HATPase_c; 1.
SM00388; HisKA; 1.
SM00086; PAC; 1.
SM00091; PAS; 2.
SMART graphical view of domain structure.
TIGRFAMs TIGR00229; sensory_box; 1.
PROSITE PS50109; HIS_KIN; 1.
PS50112; PAS; 2.
PS00245; PHYTOCHROME_1; 1.
PS50046; PHYTOCHROME_2; 1.
PROSITE graphical view of domain structure (profiles).
BLOCKS Q10CQ8.
ProtoNet Q10CQ8.
Genome annotation databases
GeneID 4334135; -.
KEGG osa:4334135; -.
Other
UniRef View cluster of proteins with at least 50% / 90% / 100% identity.
Keywords
Chromophore; Photoreceptor protein; Receptor; Repeat; Sensory transduction; Transcription; Transcription regulation.
Features
SEVIEWER logo Feature table viewer FT aligner logo Feature aligner
KeyFrom   To Length Description FTId
CHAIN   1   1137  1137     Phytochrome C. PRO_0000171979
DOMAIN   217    400  184     GAF. 
DOMAIN   620    690  71     PAS 1. 
DOMAIN   750    824  75     PAS 2. 
DOMAIN   904   1124  221     Histidine kinase. 
BINDING   322    322        Phytochromobilin chromophore (covalent; via 1 link) (By similarity). 
CONFLICT   279    279        F -> S (in Ref. 6; AAB41996). 
CONFLICT   292    292        C -> S (in Ref. 6; AAB41996). 
Sequence information
Length: 1137 AA [This is the length of the unprocessed precursor] Molecular weight: 125983 Da [This is the MW of the unprocessed precursor] CRC64: F2A520181CFE7B32 [This is a checksum on the sequence]
        10         20         30         40         50         60 
MSSSRSNNRA TCSRSSSARS KHSARVVAQT PMDAQLHAEF EGSQRHFDYS SSVGAANRSG 

        70         80         90        100        110        120 
ATTSNVSAYL QNMQRGRFVQ PFGCLLAVHP ETFALLAYSE NAAEMLDLTP HAVPTIDQRE 

       130        140        150        160        170        180 
ALAVGTDVRT LFRSHSFVAL QKAATFGDVN LLNPILVHAR TSGKPFYAIM HRIDVGLVID 

       190        200        210        220        230        240 
LEPVNPVDLP VTATGAIKSY KLAARAIARL QSLPSGNLSL LCDVLVREVS ELTGYDRVMA 

       250        260        270        280        290        300 
YKFHEDEHGE VIAECKRSDL EPYLGLHYPA TDIPQASRFL FMKNKVRMIC DCSATPVKII 

       310        320        330        340        350        360 
QDDSLTQPIS ICGSTLRAPH GCHAQYMASM GSVASLVMSV TINEDEDDDG DTGSDQQPKG 

       370        380        390        400        410        420 
RKLWGLMVCH HTSPRFVPFP LRYACEFLLQ VFGIQINKEV ELAAQAKERH ILRTQTLLCD 

       430        440        450        460        470        480 
MLLRDAPVGI FTQSPNVMDL VKCDGAALYY QNQLWVLGST PSEAEIKNIV AWLQEYHDGS 

       490        500        510        520        530        540 
TGLSTDSLVE AGYPGAAALG DVVCGMAAIK ISSKDFIFWF RSHTAKEIKW GGAKHEPIDA 

       550        560        570        580        590        600 
DDNGRKMHPR SSFKAFLEVV KWRSVPWEDV EMDAIHSLQL ILRGSLQDED ANKNNNAKSI 

       610        620        630        640        650        660 
VTAPSDDMKK IQGLLELRTV TNEMVRLIET ATAPILAVDI TGSINGWNNK AAELTGLPVM 

       670        680        690        700        710        720 
EAIGKPLVDL VIDDSVEVVK QILNSALQGI EEQNLQIKLK TFNHQENNGP VILMVNACCS 

       730        740        750        760        770        780 
RDLSEKVVGV CFVAQDMTGQ NIIMDKYTRI QGDYVAIVKN PSELIPPIFM INDLGSCLEW 

       790        800        810        820        830        840 
NEAMQKITGI KREDAVDKLL IGEVFTHHEY GCRVKDHGTL TKLSILMNTV ISGQDPEKLL 

       850        860        870        880        890        900 
FGFFNTDGKY IESLMTATKR TDAEGKITGA LCFLHVASPE LQHALQVQKM SEQAAMNSFK 

       910        920        930        940        950        960 
ELTYIRQELR NPLNGMQFTR NLLEPSDLTE EQRKLLASNV LCQEQLKKIL HDTDLESIEQ 

       970        980        990       1000       1010       1020 
CYTEMSTVDF NLEEALNTVL MQAMPQSKEK QISIDRDWPA EVSCMHLCGD NLRLQQVLAD 

      1030       1040       1050       1060       1070       1080 
FLACMLQFTQ PAEGPIVLQV IPRMENIGSG MQIAHLEFRL VHPAPGVPEA LIQEMFRHSP 

      1090       1100       1110       1120       1130 
GASREGLGLY ISQKLVKTMS GTVQYLRESE SSSFIVLVEF PVAQLSTKRC KASTSKF 

Q10CQ8 in FASTA format

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View entry in raw text format (no links)
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