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Q55168

- PHY1_SYNY3

UniProt

Q55168 - PHY1_SYNY3

Protein

Phytochrome-like protein cph1

Gene

cph1

Organism
Synechocystis sp. (strain PCC 6803 / Kazusa)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 126 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    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

    1. ATP binding Source: UniProtKB-KW
    2. identical protein binding Source: IntAct
    3. phosphorelay sensor kinase activity Source: InterPro
    4. protein binding Source: IntAct
    5. protein histidine kinase activity Source: UniProtKB
    6. red or far-red light photoreceptor activity Source: UniProtKB

    GO - Biological processi

    1. detection of visible light Source: InterPro
    2. peptidyl-histidine phosphorylation Source: GOC
    3. protein autophosphorylation Source: UniProtKB
    4. protein-chromophore linkage Source: UniProtKB
    5. red, far-red light phototransduction Source: UniProtKB
    6. regulation of transcription, DNA-templated Source: InterPro
    7. response to red or far red light Source: UniProtKB

    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. 6185.

    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: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. membrane Source: InterPro

    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 autocatalysis1 PublicationPROSITE-ProRule annotation

    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

    IntActiQ55168. 10 interactions.
    MINTiMINT-8375044.
    STRINGi1148.slr0473.

    Structurei

    Secondary structure

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

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    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.
    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_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]
    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

    MATTVQLSDQ SLRQLETLAI HTAHLIQPHG LVVVLQEPDL TISQISANCT    50
    GILGRSPEDL LGRTLGEVFD SFQIDPIQSR LTAGQISSLN PSKLWARVMG 100
    DDFVIFDGVF HRNSDGLLVC ELEPAYTSDN LPFLGFYHMA NAALNRLRQQ 150
    ANLRDFYDVI VEEVRRMTGF DRVMLYRFDE NNHGDVIAED KRDDMEPYLG 200
    LHYPESDIPQ PARRLFIHNP IRVIPDVYGV AVPLTPAVNP STNRAVDLTE 250
    SILRSAYHCH LTYLKNMGVG ASLTISLIKD GHLWGLIACH HQTPKVIPFE 300
    LRKACEFFGR VVFSNISAQE DTETFDYRVQ LAEHEAVLLD KMTTAADFVE 350
    GLTNHPDRLL GLTGSQGAAI CFGEKLILVG ETPDEKAVQY LLQWLENREV 400
    QDVFFTSSLS QIYPDAVNFK SVASGLLAIP IARHNFLLWF RPEVLQTVNW 450
    GGDPNHAYEA TQEDGKIELH PRQSFDLWKE IVRLQSLPWQ SVEIQSALAL 500
    KKAIVNLILR QAEELAQLAR NLERSNADLK KFAYIASHDL QEPLNQVSNY 550
    VQLLEMRYSE ALDEDAKDFI DFAVTGVSLM QTLIDDILTY AKVDTQYAQL 600
    TFTDVQEVVD KALANLKQRI EESGAEIEVG SMPAVMADQI QLMQVFQNLI 650
    ANGIKFAGDK SPKIKIWGDR QEDAWVFAVQ DNGIGIDPQF FERIFVIFQR 700
    LHTRDEYKGT GMGLAICKKI IEGHQGQIWL ESNPGEGSTF YFSIPIGN 748
    Length:748
    Mass (Da):84,233
    Last modified:November 1, 1996 - v1
    Checksum:iA9ECA6D8D5B3C88A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000022 Genomic DNA. Translation: BAA10307.1.
    PIRiS74389.
    RefSeqiNP_442237.1. NC_000911.1.
    YP_005652297.1. NC_017277.1.
    YP_007452113.1. NC_020286.1.

    Genome annotation databases

    EnsemblBacteriaiBAA10307; BAA10307; BAA10307.
    GeneIDi952560.
    KEGGisyn:slr0473.
    syy:SYNGTS_2344.
    syz:MYO_123680.
    PATRICi23842112. VBISynSp132158_2597.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000022 Genomic DNA. Translation: BAA10307.1 .
    PIRi S74389.
    RefSeqi NP_442237.1. NC_000911.1.
    YP_005652297.1. NC_017277.1.
    YP_007452113.1. NC_020286.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2VEA X-ray 2.21 A 1-514 [» ]
    3ZQ5 X-ray 1.95 A 1-514 [» ]
    ProteinModelPortali Q55168.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi Q55168. 10 interactions.
    MINTi MINT-8375044.
    STRINGi 1148.slr0473.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAA10307 ; BAA10307 ; BAA10307 .
    GeneIDi 952560.
    KEGGi syn:slr0473.
    syy:SYNGTS_2344.
    syz:MYO_123680.
    PATRICi 23842112. VBISynSp132158_2597.

    Phylogenomic databases

    eggNOGi COG4251.
    HOGENOMi HOG000030537.
    KOi K11354.
    OMAi ADCAREP.
    OrthoDBi EOG6G4VQG.
    PhylomeDBi Q55168.

    Enzyme and pathway databases

    BRENDAi 2.7.13.3. 6185.

    Miscellaneous databases

    EvolutionaryTracei Q55168.

    Family and domain databases

    Gene3Di 1.10.287.130. 1 hit.
    3.30.450.40. 1 hit.
    3.30.565.10. 1 hit.
    InterProi IPR003661. EnvZ-like_dim/P.
    IPR003018. GAF.
    IPR029016. GAF_dom_like.
    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 ]
    Pfami PF01590. GAF. 1 hit.
    PF02518. HATPase_c. 1 hit.
    PF00512. HisKA. 1 hit.
    PF08446. PAS_2. 1 hit.
    PF00360. PHY. 1 hit.
    [Graphical view ]
    PRINTSi PR01033. PHYTOCHROME.
    SMARTi SM00065. GAF. 1 hit.
    SM00387. HATPase_c. 1 hit.
    SM00388. HisKA. 1 hit.
    SM00091. PAS. 1 hit.
    [Graphical view ]
    SUPFAMi SSF47384. SSF47384. 1 hit.
    SSF55781. SSF55781. 2 hits.
    SSF55785. SSF55785. 1 hit.
    SSF55874. SSF55874. 1 hit.
    PROSITEi PS50109. HIS_KIN. 1 hit.
    PS50046. PHYTOCHROME_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    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: October 1, 2014
    This is version 126 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