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Protein

Phytochrome a

Gene

PHYA

Organism
Sorghum bicolor (Sorghum) (Sorghum vulgare)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript 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 (By similarity).By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei324 – 3241Phytochromobilin 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

Names & Taxonomyi

Protein namesi
Recommended name:
Phytochrome a
Gene namesi
Name:PHYA
Ordered Locus Names:Sb03g017600
OrganismiSorghum bicolor (Sorghum) (Sorghum vulgare)
Taxonomic identifieri4558 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaePACMAD cladePanicoideaeAndropogonodaeAndropogoneaeSorghinaeSorghum

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 11311131Phytochrome aPRO_0000171987Add
BLAST

Post-translational modificationi

Contains one covalently linked phytochromobilin chromophore.By similarity

Expressioni

Gene expression databases

ExpressionAtlasiP93526. baseline and differential.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

STRINGi4558.Sb01g009920.1.

Structurei

3D structure databases

ProteinModelPortaliP93526.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini219 – 404186GAFAdd
BLAST
Domaini620 – 69071PAS 1PROSITE-ProRule annotationAdd
BLAST
Domaini750 – 83485PAS 2PROSITE-ProRule annotationAdd
BLAST
Domaini904 – 1124221Histidine kinasePROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi9 – 146Poly-Ser

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

eggNOGiENOG410IHYD. Eukaryota.
COG4251. LUCA.
HOGENOMiHOG000272703.
OMAiNIRHIRE.
OrthoDBiEOG093600OD.

Family and domain databases

Gene3Di3.30.565.10. 1 hit.
InterProiIPR003018. GAF.
IPR029016. GAF_dom-like.
IPR003594. HATPase_C.
IPR005467. His_kinase_dom.
IPR003661. HisK_dim/P.
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.
PF00512. HisKA. 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.
SM00388. HisKA. 1 hit.
SM00091. PAS. 2 hits.
[Graphical view]
SUPFAMiSSF55781. SSF55781. 2 hits.
SSF55785. SSF55785. 3 hits.
SSF55874. SSF55874. 1 hit.
TIGRFAMsiTIGR00229. sensory_box. 1 hit.
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.

P93526-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSSRPAHSS SSSSRTRQSS QARILAQTTL DAELNAEYEE SGDSFDYSKL
60 70 80 90 100
VEAQRSTPSE QQGRSGKVIA YLQHIQRGKL IQPFGCLLAL DEKSFRVIAF
110 120 130 140 150
SENAPEMLTT VSHAVPNVDD PPKLGIGTNV RSLFTDPGAT ALQKALGFAD
160 170 180 190 200
VSLLNPILVQ CKTSGKPFYA IVHRATGCLV VDFEPVKPTE FPATAAGALQ
210 220 230 240 250
SYKLAAKAIS KIQSLPGGSM EALCNTVVKE VFELTGYDRV MAYKFHEDEH
260 270 280 290 300
GEVFAEITKP GIEPYLGLHY PATDIPQAAR FLFMKNKVRM ICDCRAKSVK
310 320 330 340 350
IIEDEALSID ISLCGSTLRA PHSCHLQYME NMNSIASLVM AVVVNENEED
360 370 380 390 400
DEPGPEQPPQ QQKKKRLWGL IVCHHESPRY VPFPLRYACE FLAQVFAVHV
410 420 430 440 450
NKEFELEKQI REKSILRMQT MLSDMLFKEA SPLSIVSGSP NIMDLVKCDG
460 470 480 490 500
AALLYGDKVW RLQTAPTESQ IRDIAFWLSE VHGDSTGLST DSLQDAGYPG
510 520 530 540 550
AASLGDMICG MAVAKITSKD ILFWFRSHTA AEIKWGGAKH DPSDKDDNRR
560 570 580 590 600
MHPRLSFKAF LEVVKMKSLP WSDYEMDAIH SLQLILRGTL NDALKPVQAS
610 620 630 640 650
GLDNQIGDLK LDGLAELQAV TSEMVRLMET ATVPILAVDG NGLVNGWNQK
660 670 680 690 700
VAELSGLRVD EAIGRHILTL VEDSSVSIVQ RMLYLALQGK EEKEVRFELK
710 720 730 740 750
THGSKRDDGP VILVVNACAS RDLHDHVVGV CFVAQDMTVH KLVMDKFTRV
760 770 780 790 800
EGDYKAIIHN PNPLIPPIFG ADQFGWCSEW NVAMTKLTGW HRDEVIDKML
810 820 830 840 850
LGEVFDSSNA SCLLKSKDDF VRLCIIINSA LAGEEAENAP FGLFDRNGKY
860 870 880 890 900
IECLLSVNRK VNADGVVTGV FCFIHVPSDD LQHALHVQQA SEQTAQRRLK
910 920 930 940 950
AFSYMRHAIN KPLSGMLYSR ETLKSTGLNE EQMRQVHVAD SCHRQLNKIL
960 970 980 990 1000
ADLDQDNITD KSSCLDLDMA EFVLEDVVVS AVSQVLIGCQ GKGIRVACNL
1010 1020 1030 1040 1050
PERFMKQKVY GDGIRLQQIL SDFLFVSVKF SPVGGSVDIS SKLTKNSIGE
1060 1070 1080 1090 1100
NLHLIDFELR IKHQGAGVPA EILSQMYEED NKEPSEEGLS LLVSRNLLRL
1110 1120 1130
MNGNIRHIRE AGMSTFILTA ELAAAPSAVG Q
Length:1,131
Mass (Da):125,049
Last modified:May 1, 1997 - v1
Checksum:i90E174FC6CD31C5D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U56729 mRNA. Translation: AAB41397.1.

Genome annotation databases

EnsemblPlantsiSb01g009920.1; Sb01g009920.1; Sb01g009920.
Sb01g009920.2; Sb01g009920.2; Sb01g009920.
Sb01g009920.3; Sb01g009920.3; Sb01g009920.
GrameneiSb01g009920.1; Sb01g009920.1; Sb01g009920.
Sb01g009920.2; Sb01g009920.2; Sb01g009920.
Sb01g009920.3; Sb01g009920.3; Sb01g009920.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U56729 mRNA. Translation: AAB41397.1.

3D structure databases

ProteinModelPortaliP93526.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi4558.Sb01g009920.1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiSb01g009920.1; Sb01g009920.1; Sb01g009920.
Sb01g009920.2; Sb01g009920.2; Sb01g009920.
Sb01g009920.3; Sb01g009920.3; Sb01g009920.
GrameneiSb01g009920.1; Sb01g009920.1; Sb01g009920.
Sb01g009920.2; Sb01g009920.2; Sb01g009920.
Sb01g009920.3; Sb01g009920.3; Sb01g009920.

Phylogenomic databases

eggNOGiENOG410IHYD. Eukaryota.
COG4251. LUCA.
HOGENOMiHOG000272703.
OMAiNIRHIRE.
OrthoDBiEOG093600OD.

Gene expression databases

ExpressionAtlasiP93526. baseline and differential.

Family and domain databases

Gene3Di3.30.565.10. 1 hit.
InterProiIPR003018. GAF.
IPR029016. GAF_dom-like.
IPR003594. HATPase_C.
IPR005467. His_kinase_dom.
IPR003661. HisK_dim/P.
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.
PF00512. HisKA. 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.
SM00388. HisKA. 1 hit.
SM00091. PAS. 2 hits.
[Graphical view]
SUPFAMiSSF55781. SSF55781. 2 hits.
SSF55785. SSF55785. 3 hits.
SSF55874. SSF55874. 1 hit.
TIGRFAMsiTIGR00229. sensory_box. 1 hit.
PROSITEiPS50109. HIS_KIN. 1 hit.
PS50112. PAS. 2 hits.
PS00245. PHYTOCHROME_1. 1 hit.
PS50046. PHYTOCHROME_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPHYA_SORBI
AccessioniPrimary (citable) accession number: P93526
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: May 1, 1997
Last modified: September 7, 2016
This is version 107 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Documents

  1. 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.