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Q55168 (PHY1_SYNY3) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 122. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Phytochrome-like protein cph1

EC=2.7.13.3
Alternative name(s):
Bacteriophytochrome cph1
Light-regulated histidine kinase 1
Gene names
Name:cph1
Ordered Locus Names:slr0473
OrganismSynechocystis sp. (strain PCC 6803 / Kazusa) [Reference proteome] [HAMAP]
Taxonomic identifier1111708 [NCBI]
Taxonomic lineageBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechocystis

Protein attributes

Sequence length748 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Regulatory photoreceptor which exists in two forms that are reversibly interconvertible by light: the R form that absorbs maximally in the red region of the spectrum and the FR form that absorbs maximally in the far-red region. Has also a slight blue shift for the far-red maximum. Forms a two-component system with the rcp1 response regulator.

Catalytic activity

ATP + protein L-histidine = ADP + protein N-phospho-L-histidine.

Subunit structure

Homodimer.

Post-translational modification

Contains one covalently linked tetrapyrrole chromophore By similarity.

Miscellaneous

The R form exhibits both ATP-dependent autophosphorylation and phosphotransfer to rcp1 activities. Unlike the higher plants where Pfr is thought to be the active form.

Sequence similarities

In the N-terminal section; belongs to the phytochrome family.

Contains 1 GAF domain.

Contains 1 histidine kinase domain.

Contains 1 PAS (PER-ARNT-SIM) domain.

Ontologies

Keywords
   Biological processSensory transduction
   LigandATP-binding
Chromophore
Nucleotide-binding
   Molecular functionKinase
Photoreceptor protein
Receptor
Transferase
   PTMPhosphoprotein
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processdetection of visible light

Inferred from electronic annotation. Source: InterPro

peptidyl-histidine phosphorylation

Inferred from direct assay Ref.4. Source: GOC

protein autophosphorylation

Inferred from direct assay Ref.4. Source: UniProtKB

protein-chromophore linkage

Inferred from direct assay PubMed 15641769. Source: UniProtKB

red, far-red light phototransduction

Inferred from direct assay PubMed 15641769. Source: UniProtKB

regulation of transcription, DNA-templated

Inferred from electronic annotation. Source: InterPro

response to red or far red light

Inferred from direct assay Ref.4. Source: UniProtKB

   Cellular_componentmembrane

Inferred from electronic annotation. Source: InterPro

   Molecular_functionATP binding

Inferred from electronic annotation. Source: UniProtKB-KW

identical protein binding

Inferred from physical interaction PubMed 11532008PubMed 12741847PubMed 15641769PubMed 22641032Ref.4. Source: IntAct

phosphorelay sensor kinase activity

Inferred from electronic annotation. Source: InterPro

protein histidine kinase activity

Inferred from direct assay Ref.4. Source: UniProtKB

red or far-red light photoreceptor activity

Inferred from direct assay PubMed 15641769. Source: UniProtKB

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

itself7EBI-594457,EBI-594457
rcp1Q551692EBI-594457,EBI-766949

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 748748Phytochrome-like protein cph1
PRO_0000172001

Regions

Domain19 – 8668PAS
Domain152 – 320169GAF
Domain535 – 748214Histidine kinase
Region87 – 510424Chromophore binding domain

Sites

Binding site2591Tetrapyrrole chromophore (covalent; via 1 link) By similarity

Amino acid modifications

Modified residue5381Phosphohistidine; by autocatalysis

Experimental info

Mutagenesis5381H → K: No autophosphorylation; no phosphotransfer to Rcp1. Ref.4

Secondary structure

.......................................................................................... 748
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q55168 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: A9ECA6D8D5B3C88A

FASTA74884,233
        10         20         30         40         50         60 
MATTVQLSDQ SLRQLETLAI HTAHLIQPHG LVVVLQEPDL TISQISANCT GILGRSPEDL 

        70         80         90        100        110        120 
LGRTLGEVFD SFQIDPIQSR LTAGQISSLN PSKLWARVMG DDFVIFDGVF HRNSDGLLVC 

       130        140        150        160        170        180 
ELEPAYTSDN LPFLGFYHMA NAALNRLRQQ ANLRDFYDVI VEEVRRMTGF DRVMLYRFDE 

       190        200        210        220        230        240 
NNHGDVIAED KRDDMEPYLG LHYPESDIPQ PARRLFIHNP IRVIPDVYGV AVPLTPAVNP 

       250        260        270        280        290        300 
STNRAVDLTE SILRSAYHCH LTYLKNMGVG ASLTISLIKD GHLWGLIACH HQTPKVIPFE 

       310        320        330        340        350        360 
LRKACEFFGR VVFSNISAQE DTETFDYRVQ LAEHEAVLLD KMTTAADFVE GLTNHPDRLL 

       370        380        390        400        410        420 
GLTGSQGAAI CFGEKLILVG ETPDEKAVQY LLQWLENREV QDVFFTSSLS QIYPDAVNFK 

       430        440        450        460        470        480 
SVASGLLAIP IARHNFLLWF RPEVLQTVNW GGDPNHAYEA TQEDGKIELH PRQSFDLWKE 

       490        500        510        520        530        540 
IVRLQSLPWQ SVEIQSALAL KKAIVNLILR QAEELAQLAR NLERSNADLK KFAYIASHDL 

       550        560        570        580        590        600 
QEPLNQVSNY VQLLEMRYSE ALDEDAKDFI DFAVTGVSLM QTLIDDILTY AKVDTQYAQL 

       610        620        630        640        650        660 
TFTDVQEVVD KALANLKQRI EESGAEIEVG SMPAVMADQI QLMQVFQNLI ANGIKFAGDK 

       670        680        690        700        710        720 
SPKIKIWGDR QEDAWVFAVQ DNGIGIDPQF FERIFVIFQR LHTRDEYKGT GMGLAICKKI 

       730        740 
IEGHQGQIWL ESNPGEGSTF YFSIPIGN 

« Hide

References

« Hide 'large scale' references
[1]"Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. I. Sequence features in the 1 Mb region from map positions 64% to 92% of the genome."
Kaneko T., Tanaka A., Sato S., Kotani H., Sazuka T., Miyajima N., Sugiura M., Tabata S.
DNA Res. 2:153-166(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 27184 / PCC 6803 / N-1.
[2]"Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions."
Kaneko T., Sato S., Kotani H., Tanaka A., Asamizu E., Nakamura Y., Miyajima N., Hirosawa M., Sugiura M., Sasamoto S., Kimura T., Hosouchi T., Matsuno A., Muraki A., Nakazaki N., Naruo K., Okumura S., Shimpo S. expand/collapse author list , Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
DNA Res. 3:109-136(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: PCC 6803 / Kazusa.
[3]"A prokaryotic phytochrome."
Hughes J., Lamparter T., Mittmann F., Hartmann E., Gartner W., Wilde A., Borner T.
Nature 386:663-663(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: CHARACTERIZATION.
[4]"A cyanobacterial phytochrome two-component light sensory system."
Yeh K.-C., Wu S.-H., Murphy J.T., Lagarias J.C.
Science 277:1505-1508(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: CHARACTERIZATION, MUTAGENESIS OF HIS-538.
[5]"Chromophore-apoprotein interactions in Synechocystis sp. PCC6803 phytochrome Cph1."
Park C.-M., Shim J.-Y., Yang S.-S., Kang J.-G., Kim J.-I., Luka Z., Song P.-S.
Biochemistry 39:6349-6356(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: CHARACTERIZATION.
[6]"Prokaryotes and phytochrome. The connection to chromophores and signaling."
Hughes J., Lamparter T.
Plant Physiol. 121:1059-1068(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: REVIEW.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
BA000022 Genomic DNA. Translation: BAA10307.1.
PIRS74389.
RefSeqNP_442237.1. NC_000911.1.
YP_005652297.1. NC_017277.1.
YP_007452113.1. NC_020286.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
2VEAX-ray2.21A1-514[»]
3ZQ5X-ray1.95A1-514[»]
ProteinModelPortalQ55168.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

IntActQ55168. 10 interactions.
MINTMINT-8375044.
STRING1148.slr0473.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAA10307; BAA10307; BAA10307.
GeneID12253516.
14617790.
952560.
KEGGsyn:slr0473.
syy:SYNGTS_2344.
syz:MYO_123680.
PATRIC23842112. VBISynSp132158_2597.

Phylogenomic databases

eggNOGCOG4251.
HOGENOMHOG000030537.
KOK11354.
OMACAQEPIQ.
OrthoDBEOG6G4VQG.
PhylomeDBQ55168.
ProtClustDBCLSK893476.

Enzyme and pathway databases

BRENDA2.7.13.3. 6185.

Family and domain databases

Gene3D1.10.287.130. 1 hit.
3.30.565.10. 1 hit.
InterProIPR003661. EnvZ-like_dim/P.
IPR003018. GAF.
IPR003594. HATPase_ATP-bd.
IPR000014. PAS.
IPR013654. PAS_2.
IPR016132. Phyto_chromo_attachment.
IPR001294. Phytochrome.
IPR013515. Phytochrome_cen-reg.
IPR005467. Sig_transdc_His_kinase_core.
IPR009082. Sig_transdc_His_kinase_dimeric.
[Graphical view]
PfamPF01590. GAF. 1 hit.
PF02518. HATPase_c. 1 hit.
PF00512. HisKA. 1 hit.
PF08446. PAS_2. 1 hit.
PF00360. PHY. 1 hit.
[Graphical view]
PRINTSPR01033. PHYTOCHROME.
SMARTSM00065. GAF. 1 hit.
SM00387. HATPase_c. 1 hit.
SM00388. HisKA. 1 hit.
SM00091. PAS. 1 hit.
[Graphical view]
SUPFAMSSF47384. SSF47384. 1 hit.
SSF55785. SSF55785. 1 hit.
SSF55874. SSF55874. 1 hit.
PROSITEPS50109. HIS_KIN. 1 hit.
PS50046. PHYTOCHROME_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceQ55168.

Entry information

Entry namePHY1_SYNY3
AccessionPrimary (citable) accession number: Q55168
Entry history
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: April 16, 2014
This is version 122 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

Synechocystis PCC 6803

Synechocystis (strain PCC 6803): entries and gene names

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references