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Protein

Phytochrome C

Gene

PHYC

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Regulatory photoreceptor which exists in two forms that are reversibly interconvertible by light: the Pr form that absorbs maximally in the red region of the spectrum and the Pfr form that absorbs maximally in the far-red region. Photoconversion of Pr to Pfr induces an array of morphogenic responses, whereas reconversion of Pfr to Pr cancels the induction of those responses. Pfr controls the expression of a number of nuclear genes including those encoding the small subunit of ribulose-bisphosphate carboxylase, chlorophyll A/B binding protein, protochlorophyllide reductase, rRNA, etc. It also controls the expression of its own gene(s) in a negative feedback fashion.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei318 – 3181Phytochromobilin chromophore (covalent; via 1 link)By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Photoreceptor protein, Receptor

Keywords - Biological processi

Sensory transduction, Transcription, Transcription regulation

Keywords - Ligandi

Chromophore

Enzyme and pathway databases

BioCyciARA:GQT-1838-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Phytochrome C
Gene namesi
Name:PHYC
Ordered Locus Names:At5g35840
ORF Names:MIK22.15
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G35840.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 11111111Phytochrome CPRO_0000171964Add
BLAST

Post-translational modificationi

Contains one covalently linked phytochromobilin chromophore.By similarity

Proteomic databases

PaxDbiP14714.
PRIDEiP14714.

Expressioni

Gene expression databases

ExpressionAtlasiP14714. baseline and differential.
GenevisibleiP14714. AT.

Interactioni

Subunit structurei

Homodimer.

Binary interactionsi

WithEntry#Exp.IntActNotes
PHYBP147135EBI-624366,EBI-300727
PHYDP424972EBI-624366,EBI-624382

Protein-protein interaction databases

BioGridi18823. 4 interactions.
IntActiP14714. 3 interactions.
STRINGi3702.AT5G35840.1.

Structurei

3D structure databases

ProteinModelPortaliP14714.
SMRiP14714. Positions 62-726.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini213 – 393181GAFAdd
BLAST
Domaini604 – 67471PAS 1PROSITE-ProRule annotationAdd
BLAST
Domaini737 – 80872PAS 2PROSITE-ProRule annotationAdd
BLAST
Domaini889 – 1111223Histidine kinasePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the phytochrome family.Curated
Contains 1 GAF domain.Curated
Contains 1 histidine kinase domain.PROSITE-ProRule annotation
Contains 2 PAS (PER-ARNT-SIM) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiENOG410IFBJ. Eukaryota.
COG0642. LUCA.
COG4251. LUCA.
HOGENOMiHOG000272703.
InParanoidiP14714.
OMAiGWNNKAA.
PhylomeDBiP14714.

Family and domain databases

Gene3Di3.30.565.10. 1 hit.
InterProiIPR003018. GAF.
IPR029016. GAF_dom-like.
IPR003594. HATPase_C.
IPR005467. His_kinase_dom.
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_cen-reg.
[Graphical view]
PfamiPF01590. GAF. 1 hit.
PF02518. HATPase_c. 1 hit.
PF00989. PAS. 2 hits.
PF08446. PAS_2. 1 hit.
PF00360. PHY. 1 hit.
[Graphical view]
PIRSFiPIRSF000084. Phytochrome. 1 hit.
PRINTSiPR01033. PHYTOCHROME.
SMARTiSM00065. GAF. 1 hit.
SM00387. HATPase_c. 1 hit.
SM00086. PAC. 1 hit.
SM00091. PAS. 2 hits.
[Graphical view]
SUPFAMiSSF55781. SSF55781. 2 hits.
SSF55785. SSF55785. 3 hits.
SSF55874. SSF55874. 1 hit.
TIGRFAMsiTIGR00229. sensory_box. 2 hits.
PROSITEiPS50109. HIS_KIN. 1 hit.
PS50112. PAS. 2 hits.
PS00245. PHYTOCHROME_1. 1 hit.
PS50046. PHYTOCHROME_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P14714-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSNTSRSCS TRSRQNSRVS SQVLVDAKLH GNFEESERLF DYSASINLNM
60 70 80 90 100
PSSSCEIPSS AVSTYLQKIQ RGMLIQPFGC LIVVDEKNLK VIAFSENTQE
110 120 130 140 150
MLGLIPHTVP SMEQREALTI GTDVKSLFLS PGCSALEKAV DFGEISILNP
160 170 180 190 200
ITLHCRSSSK PFYAILHRIE EGLVIDLEPV SPDEVPVTAA GALRSYKLAA
210 220 230 240 250
KSISRLQALP SGNMLLLCDA LVKEVSELTG YDRVMVYKFH EDGHGEVIAE
260 270 280 290 300
CCREDMEPYL GLHYSATDIP QASRFLFMRN KVRMICDCSA VPVKVVQDKS
310 320 330 340 350
LSQPISLSGS TLRAPHGCHA QYMSNMGSVA SLVMSVTING SDSDEMNRDL
360 370 380 390 400
QTGRHLWGLV VCHHASPRFV PFPLRYACEF LTQVFGVQIN KEAESAVLLK
410 420 430 440 450
EKRILQTQSV LCDMLFRNAP IGIVTQSPNI MDLVKCDGAA LYYRDNLWSL
460 470 480 490 500
GVTPTETQIR DLIDWVLKSH GGNTGFTTES LMESGYPDAS VLGESICGMA
510 520 530 540 550
AVYISEKDFL FWFRSSTAKQ IKWGGARHDP NDRDGKRMHP RSSFKAFMEI
560 570 580 590 600
VRWKSVPWDD MEMDAINSLQ LIIKGSLQEE HSKTVVDVPL VDNRVQKVDE
610 620 630 640 650
LCVIVNEMVR LIDTAAVPIF AVDASGVING WNSKAAEVTG LAVEQAIGKP
660 670 680 690 700
VSDLVEDDSV ETVKNMLALA LEGSEERGAE IRIRAFGPKR KSSPVELVVN
710 720 730 740 750
TCCSRDMTNN VLGVCFIGQD VTGQKTLTEN YSRVKGDYAR IMWSPSTLIP
760 770 780 790 800
PIFITNENGV CSEWNNAMQK LSGIKREEVV NKILLGEVFT TDDYGCCLKD
810 820 830 840 850
HDTLTKLRIG FNAVISGQKN IEKLLFGFYH RDGSFIEALL SANKRTDIEG
860 870 880 890 900
KVTGVLCFLQ VPSPELQYAL QVQQISEHAI ACALNKLAYL RHEVKDPEKA
910 920 930 940 950
ISFLQDLLHS SGLSEDQKRL LRTSVLCREQ LAKVISDSDI EGIEEGYVEL
960 970 980 990 1000
DCSEFGLQES LEAVVKQVME LSIERKVQIS CDYPQEVSSM RLYGDNLRLQ
1010 1020 1030 1040 1050
QILSETLLSS IRFTPALRGL CVSFKVIARI EAIGKRMKRV ELEFRIIHPA
1060 1070 1080 1090 1100
PGLPEDLVRE MFQPLRKGTS REGLGLHITQ KLVKLMERGT LRYLRESEMS
1110
AFVILTEFPL I
Length:1,111
Mass (Da):123,722
Last modified:April 1, 1990 - v1
Checksum:i58FE4645501135CA
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti9 – 91C → Y in CAA83549 (PubMed:7991704).Curated
Sequence conflicti137 – 1371E → Q in CAA83549 (PubMed:7991704).Curated
Sequence conflicti230 – 2301G → S in CAA83549 (PubMed:7991704).Curated
Sequence conflicti446 – 4461N → K in CAA83549 (PubMed:7991704).Curated
Sequence conflicti505 – 5051S → T in CAA83549 (PubMed:7991704).Curated
Sequence conflicti726 – 7261T → K in CAA83549 (PubMed:7991704).Curated
Sequence conflicti735 – 7351K → Q in CAA83549 (PubMed:7991704).Curated
Sequence conflicti754 – 7541I → M in CAA83549 (PubMed:7991704).Curated
Sequence conflicti822 – 8221E → K in CAA83549 (PubMed:7991704).Curated
Sequence conflicti1017 – 10182LR → WK in CAA83549 (PubMed:7991704).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X17343 mRNA. Translation: CAA35223.1.
Z32538 Genomic DNA. Translation: CAA83549.1.
AB005236 Genomic DNA. Translation: BAB09925.1.
CP002688 Genomic DNA. Translation: AED94021.1.
PIRiC33473. FKMUC.
RefSeqiNP_198433.1. NM_122975.2.
UniGeneiAt.97.

Genome annotation databases

EnsemblPlantsiAT5G35840.1; AT5G35840.1; AT5G35840.
GeneIDi833570.
GrameneiAT5G35840.1; AT5G35840.1; AT5G35840.
KEGGiath:AT5G35840.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X17343 mRNA. Translation: CAA35223.1.
Z32538 Genomic DNA. Translation: CAA83549.1.
AB005236 Genomic DNA. Translation: BAB09925.1.
CP002688 Genomic DNA. Translation: AED94021.1.
PIRiC33473. FKMUC.
RefSeqiNP_198433.1. NM_122975.2.
UniGeneiAt.97.

3D structure databases

ProteinModelPortaliP14714.
SMRiP14714. Positions 62-726.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi18823. 4 interactions.
IntActiP14714. 3 interactions.
STRINGi3702.AT5G35840.1.

Proteomic databases

PaxDbiP14714.
PRIDEiP14714.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G35840.1; AT5G35840.1; AT5G35840.
GeneIDi833570.
GrameneiAT5G35840.1; AT5G35840.1; AT5G35840.
KEGGiath:AT5G35840.

Organism-specific databases

TAIRiAT5G35840.

Phylogenomic databases

eggNOGiENOG410IFBJ. Eukaryota.
COG0642. LUCA.
COG4251. LUCA.
HOGENOMiHOG000272703.
InParanoidiP14714.
OMAiGWNNKAA.
PhylomeDBiP14714.

Enzyme and pathway databases

BioCyciARA:GQT-1838-MONOMER.

Miscellaneous databases

PROiP14714.

Gene expression databases

ExpressionAtlasiP14714. baseline and differential.
GenevisibleiP14714. AT.

Family and domain databases

Gene3Di3.30.565.10. 1 hit.
InterProiIPR003018. GAF.
IPR029016. GAF_dom-like.
IPR003594. HATPase_C.
IPR005467. His_kinase_dom.
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_cen-reg.
[Graphical view]
PfamiPF01590. GAF. 1 hit.
PF02518. HATPase_c. 1 hit.
PF00989. PAS. 2 hits.
PF08446. PAS_2. 1 hit.
PF00360. PHY. 1 hit.
[Graphical view]
PIRSFiPIRSF000084. Phytochrome. 1 hit.
PRINTSiPR01033. PHYTOCHROME.
SMARTiSM00065. GAF. 1 hit.
SM00387. HATPase_c. 1 hit.
SM00086. PAC. 1 hit.
SM00091. PAS. 2 hits.
[Graphical view]
SUPFAMiSSF55781. SSF55781. 2 hits.
SSF55785. SSF55785. 3 hits.
SSF55874. SSF55874. 1 hit.
TIGRFAMsiTIGR00229. sensory_box. 2 hits.
PROSITEiPS50109. HIS_KIN. 1 hit.
PS50112. PAS. 2 hits.
PS00245. PHYTOCHROME_1. 1 hit.
PS50046. PHYTOCHROME_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Novel phytochrome sequences in Arabidopsis thaliana: structure, evolution, and differential expression of a plant regulatory photoreceptor family."
    Sharrock R.A., Quail P.H.
    Genes Dev. 3:1745-1757(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: cv. Columbia.
  2. "The PHYC gene of Arabidopsis. Absence of the third intron found in PHYA and PHYB."
    Cowl J.S., Hartley N., Xie D., Whitelam G.C., Murphy G., Harberd N.P.
    Plant Physiol. 106:813-814(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. "Structural analysis of Arabidopsis thaliana chromosome 5. I. Sequence features of the 1.6 Mb regions covered by twenty physically assigned P1 clones."
    Sato S., Kotani H., Nakamura Y., Kaneko T., Asamizu E., Fukami M., Miyajima N., Tabata S.
    DNA Res. 4:215-230(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  4. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.

Entry informationi

Entry nameiPHYC_ARATH
AccessioniPrimary (citable) accession number: P14714
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1990
Last sequence update: April 1, 1990
Last modified: May 11, 2016
This is version 146 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. SIMILARITY comments
    Index of protein domains and families

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 one 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.