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Protein

Phytochrome-like protein cph1

Gene

cph1

Organism
Synechocystis sp. (strain PCC 6803 / Kazusa)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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 activityi

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei259 – 2591Tetrapyrrole chromophore (covalent; via 1 link)By similarity

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • identical protein binding Source: IntAct
  • phosphorelay sensor kinase activity Source: GO_Central
  • protein histidine kinase activity Source: UniProtKB
  • red or far-red light photoreceptor activity Source: UniProtKB

GO - Biological processi

  • detection of visible light Source: InterPro
  • peptidyl-histidine phosphorylation Source: GOC
  • phosphorelay signal transduction system Source: GO_Central
  • protein autophosphorylation Source: UniProtKB
  • protein-chromophore linkage Source: UniProtKB
  • red, far-red light phototransduction Source: UniProtKB
  • regulation of transcription, DNA-templated Source: InterPro
  • response to red or far red light Source: UniProtKB
  • signal transduction by protein phosphorylation Source: GOC
Complete GO annotation...

Keywords - Molecular functioni

Kinase, Photoreceptor protein, Receptor, Transferase

Keywords - Biological processi

Sensory transduction

Keywords - Ligandi

ATP-binding, Chromophore, Nucleotide-binding

Enzyme and pathway databases

BRENDAi2.7.13.3. 382.

Names & Taxonomyi

Protein namesi
Recommended name:
Phytochrome-like protein cph1 (EC:2.7.13.3)
Alternative name(s):
Bacteriophytochrome cph1
Light-regulated histidine kinase 1
Gene namesi
Name:cph1
Ordered Locus Names:slr0473
OrganismiSynechocystis sp. (strain PCC 6803 / Kazusa)
Taxonomic identifieri1111708 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechocystis
ProteomesiUP000001425 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi538 – 5381H → K: No autophosphorylation; no phosphotransfer to Rcp1. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 748748Phytochrome-like protein cph1PRO_0000172001Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei538 – 5381Phosphohistidine; by autocatalysisPROSITE-ProRule annotation1 Publication

Post-translational modificationi

Contains one covalently linked tetrapyrrole chromophore.By similarity

Keywords - PTMi

Phosphoprotein

Interactioni

Subunit structurei

Homodimer.

Binary interactionsi

WithEntry#Exp.IntActNotes
itself7EBI-594457,EBI-594457
rcp1Q551692EBI-594457,EBI-766949

Protein-protein interaction databases

DIPiDIP-34651N.
IntActiQ55168. 10 interactions.
MINTiMINT-8375044.

Structurei

Secondary structure

1
748
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi9 – 168Combined sources
Helixi20 – 223Combined sources
Beta strandi30 – 367Combined sources
Turni37 – 404Combined sources
Beta strandi41 – 466Combined sources
Helixi49 – 535Combined sources
Helixi57 – 604Combined sources
Helixi65 – 684Combined sources
Beta strandi70 – 734Combined sources
Helixi83 – 886Combined sources
Beta strandi90 – 989Combined sources
Turni99 – 1013Combined sources
Beta strandi102 – 11211Combined sources
Beta strandi118 – 1247Combined sources
Helixi136 – 14914Combined sources
Helixi153 – 16816Combined sources
Beta strandi171 – 1788Combined sources
Beta strandi184 – 1918Combined sources
Beta strandi201 – 2033Combined sources
Helixi205 – 2073Combined sources
Helixi210 – 2189Combined sources
Beta strandi221 – 2255Combined sources
Beta strandi227 – 2293Combined sources
Beta strandi232 – 2387Combined sources
Turni240 – 2423Combined sources
Beta strandi252 – 2543Combined sources
Helixi258 – 2669Combined sources
Beta strandi270 – 27910Combined sources
Beta strandi282 – 29312Combined sources
Helixi299 – 34446Combined sources
Beta strandi345 – 3473Combined sources
Helixi348 – 3536Combined sources
Helixi356 – 3616Combined sources
Turni362 – 3643Combined sources
Beta strandi366 – 3727Combined sources
Beta strandi375 – 3817Combined sources
Helixi385 – 39713Combined sources
Beta strandi404 – 4074Combined sources
Helixi409 – 4113Combined sources
Helixi414 – 4196Combined sources
Helixi420 – 4234Combined sources
Beta strandi424 – 4318Combined sources
Turni432 – 4343Combined sources
Beta strandi435 – 4417Combined sources
Beta strandi446 – 4527Combined sources
Helixi454 – 4563Combined sources
Beta strandi458 – 4636Combined sources
Beta strandi466 – 4705Combined sources
Beta strandi478 – 4825Combined sources
Helixi491 – 51424Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2VEAX-ray2.21A1-514[»]
3ZQ5X-ray1.95A1-514[»]
ProteinModelPortaliQ55168.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ55168.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini19 – 8668PASAdd
BLAST
Domaini152 – 320169GAFAdd
BLAST
Domaini535 – 748214Histidine kinasePROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni87 – 510424Chromophore binding domainAdd
BLAST

Sequence similaritiesi

In the N-terminal section; belongs to the phytochrome family.Curated
Contains 1 GAF domain.Curated
Contains 1 histidine kinase domain.PROSITE-ProRule annotation
Contains 1 PAS (PER-ARNT-SIM) domain.Curated

Phylogenomic databases

eggNOGiCOG4251.
HOGENOMiHOG000030537.
InParanoidiQ55168.
KOiK11354.
OMAiADCAREP.
OrthoDBiEOG6G4VQG.
PhylomeDBiQ55168.

Family and domain databases

Gene3Di1.10.287.130. 1 hit.
3.30.450.40. 1 hit.
3.30.565.10. 1 hit.
InterProiIPR003661. EnvZ-like_dim/P.
IPR003018. GAF.
IPR029016. GAF_dom-like.
IPR003594. HATPase_C.
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]
PfamiPF01590. GAF. 1 hit.
PF02518. HATPase_c. 1 hit.
PF00512. HisKA. 1 hit.
PF08446. PAS_2. 1 hit.
PF00360. PHY. 1 hit.
[Graphical view]
PRINTSiPR01033. PHYTOCHROME.
SMARTiSM00065. GAF. 1 hit.
SM00387. HATPase_c. 1 hit.
SM00388. HisKA. 1 hit.
SM00091. PAS. 1 hit.
[Graphical view]
SUPFAMiSSF47384. SSF47384. 1 hit.
SSF55781. SSF55781. 2 hits.
SSF55785. SSF55785. 1 hit.
SSF55874. SSF55874. 1 hit.
PROSITEiPS50109. HIS_KIN. 1 hit.
PS50046. PHYTOCHROME_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q55168-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MATTVQLSDQ SLRQLETLAI HTAHLIQPHG LVVVLQEPDL TISQISANCT
60 70 80 90 100
GILGRSPEDL LGRTLGEVFD SFQIDPIQSR LTAGQISSLN PSKLWARVMG
110 120 130 140 150
DDFVIFDGVF HRNSDGLLVC ELEPAYTSDN LPFLGFYHMA NAALNRLRQQ
160 170 180 190 200
ANLRDFYDVI VEEVRRMTGF DRVMLYRFDE NNHGDVIAED KRDDMEPYLG
210 220 230 240 250
LHYPESDIPQ PARRLFIHNP IRVIPDVYGV AVPLTPAVNP STNRAVDLTE
260 270 280 290 300
SILRSAYHCH LTYLKNMGVG ASLTISLIKD GHLWGLIACH HQTPKVIPFE
310 320 330 340 350
LRKACEFFGR VVFSNISAQE DTETFDYRVQ LAEHEAVLLD KMTTAADFVE
360 370 380 390 400
GLTNHPDRLL GLTGSQGAAI CFGEKLILVG ETPDEKAVQY LLQWLENREV
410 420 430 440 450
QDVFFTSSLS QIYPDAVNFK SVASGLLAIP IARHNFLLWF RPEVLQTVNW
460 470 480 490 500
GGDPNHAYEA TQEDGKIELH PRQSFDLWKE IVRLQSLPWQ SVEIQSALAL
510 520 530 540 550
KKAIVNLILR QAEELAQLAR NLERSNADLK KFAYIASHDL QEPLNQVSNY
560 570 580 590 600
VQLLEMRYSE ALDEDAKDFI DFAVTGVSLM QTLIDDILTY AKVDTQYAQL
610 620 630 640 650
TFTDVQEVVD KALANLKQRI EESGAEIEVG SMPAVMADQI QLMQVFQNLI
660 670 680 690 700
ANGIKFAGDK SPKIKIWGDR QEDAWVFAVQ DNGIGIDPQF FERIFVIFQR
710 720 730 740
LHTRDEYKGT GMGLAICKKI IEGHQGQIWL ESNPGEGSTF YFSIPIGN
Length:748
Mass (Da):84,233
Last modified:November 1, 1996 - v1
Checksum:iA9ECA6D8D5B3C88A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000022 Genomic DNA. Translation: BAA10307.1.
PIRiS74389.

Genome annotation databases

EnsemblBacteriaiBAA10307; BAA10307; BAA10307.
KEGGisyy:SYNGTS_2344.
syz:MYO_123680.
PATRICi23842112. VBISynSp132158_2597.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000022 Genomic DNA. Translation: BAA10307.1.
PIRiS74389.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2VEAX-ray2.21A1-514[»]
3ZQ5X-ray1.95A1-514[»]
ProteinModelPortaliQ55168.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-34651N.
IntActiQ55168. 10 interactions.
MINTiMINT-8375044.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA10307; BAA10307; BAA10307.
KEGGisyy:SYNGTS_2344.
syz:MYO_123680.
PATRICi23842112. VBISynSp132158_2597.

Phylogenomic databases

eggNOGiCOG4251.
HOGENOMiHOG000030537.
InParanoidiQ55168.
KOiK11354.
OMAiADCAREP.
OrthoDBiEOG6G4VQG.
PhylomeDBiQ55168.

Enzyme and pathway databases

BRENDAi2.7.13.3. 382.

Miscellaneous databases

EvolutionaryTraceiQ55168.

Family and domain databases

Gene3Di1.10.287.130. 1 hit.
3.30.450.40. 1 hit.
3.30.565.10. 1 hit.
InterProiIPR003661. EnvZ-like_dim/P.
IPR003018. GAF.
IPR029016. GAF_dom-like.
IPR003594. HATPase_C.
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]
PfamiPF01590. GAF. 1 hit.
PF02518. HATPase_c. 1 hit.
PF00512. HisKA. 1 hit.
PF08446. PAS_2. 1 hit.
PF00360. PHY. 1 hit.
[Graphical view]
PRINTSiPR01033. PHYTOCHROME.
SMARTiSM00065. GAF. 1 hit.
SM00387. HATPase_c. 1 hit.
SM00388. HisKA. 1 hit.
SM00091. PAS. 1 hit.
[Graphical view]
SUPFAMiSSF47384. SSF47384. 1 hit.
SSF55781. SSF55781. 2 hits.
SSF55785. SSF55785. 1 hit.
SSF55874. SSF55874. 1 hit.
PROSITEiPS50109. HIS_KIN. 1 hit.
PS50046. PHYTOCHROME_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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.
    , 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. 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, PHOSPHORYLATION AT HIS-538, 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.

Entry informationi

Entry nameiPHY1_SYNY3
AccessioniPrimary (citable) accession number: Q55168
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: July 22, 2015
This is version 135 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

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.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Synechocystis PCC 6803
    Synechocystis (strain PCC 6803): entries and gene names

External Data

Dasty 3

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 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.