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Q55434

- PHY2_SYNY3

UniProt

Q55434 - PHY2_SYNY3

Protein

Phytochrome-like protein cph2

Gene

cph2

Organism
Synechocystis sp. (strain PCC 6803 / Kazusa)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 113 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    Functioni

    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.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei129 – 1291Tetrapyrrole chromophore 1 (covalent; via 1 link)Curated
    Binding sitei1022 – 10221Tetrapyrrole chromophore 2 (covalent; via 1 link)Sequence Analysis

    GO - Molecular functioni

    1. phosphorus-oxygen lyase activity Source: InterPro
    2. red or far-red light photoreceptor activity Source: UniProtKB

    GO - Biological processi

    1. cyclic nucleotide biosynthetic process Source: InterPro
    2. detection of visible light Source: InterPro
    3. intracellular signal transduction Source: InterPro
    4. protein-chromophore linkage Source: UniProtKB
    5. red, far-red light phototransduction Source: UniProtKB
    6. regulation of transcription, DNA-templated Source: InterPro

    Keywords - Molecular functioni

    Photoreceptor protein, Receptor

    Keywords - Biological processi

    Sensory transduction

    Keywords - Ligandi

    Chromophore

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Phytochrome-like protein cph2
    Alternative name(s):
    Bacteriophytochrome cph2
    Gene namesi
    Name:cph2
    Ordered Locus Names:sll0821
    OrganismiSynechocystis sp. (strain PCC 6803 / Kazusa)
    Taxonomic identifieri1111708 [NCBI]
    Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechocystis
    ProteomesiUP000001425: Chromosome

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi129 – 1291C → S: Holoprotein exhibits no photochromic activity. 1 Publication
    Mutagenesisi130 – 1301H → F: Chromophore ligating activity (in vitro) is 30-40% lower than wild-type. 1 Publication
    Mutagenesisi130 – 1301H → Q: Chromophore ligating activity (in vitro) is about 10% more efficient than wild-type. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 12761276Phytochrome-like protein cph2PRO_0000172002Add
    BLAST

    Post-translational modificationi

    Contains two covalently linked tetrapyrrole chromophores.

    Interactioni

    Protein-protein interaction databases

    DIPiDIP-48801N.
    IntActiQ55434. 11 interactions.
    STRINGi1148.sll0821.

    Structurei

    Secondary structure

    1
    1276
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi7 – 1812
    Helixi24 – 3916
    Beta strandi42 – 498
    Beta strandi55 – 628
    Turni64 – 663
    Helixi77 – 793
    Helixi82 – 898
    Beta strandi93 – 986
    Helixi99 – 1013
    Beta strandi103 – 1108
    Helixi128 – 1369
    Beta strandi140 – 14910
    Beta strandi152 – 16312
    Helixi169 – 21547
    Helixi219 – 23214
    Beta strandi236 – 2427
    Beta strandi252 – 2576
    Helixi263 – 2664
    Helixi269 – 2757
    Beta strandi313 – 3164
    Helixi317 – 3204
    Turni331 – 3333
    Helixi334 – 3363
    Beta strandi338 – 34710
    Beta strandi352 – 36110
    Beta strandi363 – 3719
    Beta strandi388 – 3958
    Helixi401 – 41818

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4BWIX-ray2.60A/B2-424[»]
    ProteinModelPortaliQ55434.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini23 – 186164GAF 1Add
    BLAST
    Domaini461 – 598138GGDEF 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini607 – 861255EALPROSITE-ProRule annotationAdd
    BLAST
    Domaini939 – 1080142GAF 2Add
    BLAST
    Domaini1130 – 1266137GGDEF 2PROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni1 – 197197Bilin lyase domain 1Add
    BLAST
    Regioni939 – 1075137Bilin lyase domain 2Add
    BLAST

    Domaini

    Both bilin lyase domains bind with the bilin tetrapyrrole chromophore precursor. The domain 1 shows red, far-red light photoreversibility. The domain 2 is photochemically inactive.

    Sequence similaritiesi

    Belongs to the phytochrome family.Curated
    Contains 1 EAL domain.PROSITE-ProRule annotation
    Contains 2 GAF domains.Curated
    Contains 2 GGDEF domains.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiCOG2203.
    KOiK02488.
    OMAiAIHQGEL.
    OrthoDBiEOG6G4VQG.

    Family and domain databases

    Gene3Di3.20.20.450. 1 hit.
    3.30.450.40. 4 hits.
    InterProiIPR001054. A/G_cyclase.
    IPR001633. Diguanylate_PEstase_EAL_dom.
    IPR003018. GAF.
    IPR029016. GAF_dom_like.
    IPR000160. GGDEF_dom.
    IPR016132. Phyto_chromo_attachment.
    IPR001294. Phytochrome.
    IPR013515. Phytochrome_cen-reg.
    [Graphical view]
    PfamiPF00563. EAL. 1 hit.
    PF01590. GAF. 2 hits.
    PF00990. GGDEF. 2 hits.
    PF00360. PHY. 1 hit.
    [Graphical view]
    PRINTSiPR01033. PHYTOCHROME.
    SMARTiSM00052. EAL. 1 hit.
    SM00065. GAF. 3 hits.
    SM00267. GGDEF. 2 hits.
    [Graphical view]
    SUPFAMiSSF141868. SSF141868. 1 hit.
    SSF55073. SSF55073. 2 hits.
    SSF55781. SSF55781. 4 hits.
    TIGRFAMsiTIGR00254. GGDEF. 2 hits.
    PROSITEiPS50883. EAL. 1 hit.
    PS50887. GGDEF. 2 hits.
    PS50046. PHYTOCHROME_2. 2 hits.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q55434-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNPNRSLEDF LRNVINKFHR ALTLRETLQV IVEEARIFLG VDRVKIYKFA     50
    SDGSGEVLAE AVNRAALPSL LGLHFPVEDI PPQAREELGN QRKMIAVDVA 100
    HRRKKSHELS GRISPTEHSN GHYTTVDSCH IQYLLAMGVL SSLTVPVMQD 150
    QQLWGIMAVH HSKPRRFTEQ EWETMALLSK EVSLAITQSQ LSRQVHQQQV 200
    QEALVQRLET TVAQYGDRPE TWQYALETVG QAVEADGAVL YIAPDLTGSV 250
    AQHYQWNLRF DWGNWLETSL WQELMRGQPS AAMEPMAAVQ STWEKPRPFT 300
    SVAPLPPTNC VPHGYTLGEL EQRSDWIAPP ESLSAENFQS FLIVPLAADQ 350
    QWVGSLILLR KEKSLVKHWA GKRGIDRRNI LPRLSFEAWE ETQKLVPTWN 400
    RSERKLAQVA STQLYMAITQ QFVTRLITQQ TAYDPLTQLP NWIIFNRQLT 450
    LALLDALYEG KMVGVLVIAM DRFKRINESF GHKTGDGLLQ EVADRLNQKL 500
    SPLAAYSPLL SRWHGDGFTI LLTQISDNQE MIPLCERLLS TFQEPFFLQG 550
    QPIYLTASMG ISTAPYDGET AESLLKFAEI ALTRAKCQGK NTYQFYRPQD 600
    SAPMLDRLTL ESDLRQALTN QEFVLYFQPQ VALDTGKLLG VEALVRWQHP 650
    RLGQVAPDVF IPLAEELGLI NHLGQWVLET ACATHQHFFR ETGRRLRMAV 700
    NISARQFQDE KWLNSVLECL KRTGMPPEDL ELEITESLMM EDIKGTVVLL 750
    HRLREEGVQV AIDDFGTGYS SLSILKQLPI HRLKIDKSFV NDLLNEGADT 800
    AIIQYVIDLA NGLNLETVAE GIESEAQLQR LQKMGCHLGQ GYFLTRPLPA 850
    EAMMTYLYYP QILDFGPTPP LPKVALPETE TEAGQGNVGD RPLPNSLNRE 900
    NPWTEKLHDY VLLKERLQQR NVKEKLVLKI ANKIRASLNI NDILYSTVTE 950
    VRQFLNTDRV VLFKFNSQWS GQVVTESHND FCRSIINDEI DDPCFKGHYL 1000
    RLYREGRVRA VSDIEKADLA DCHKELLRHY QVKANLVVPV VFNENLWGLL 1050
    IAHECKTPRY WQEEDLQLLM ELATQVAIAI HQGELYEQLE TANIRLQQIS 1100
    SLDALTQVGN RYLFDSTLER EWQRLQRIRE PLALLLCDVD FFKGFNDNYG 1150
    HPAGDRCLKK IADAMAKVAK RPTDLVARYG GEEFAIILSE TSLEGAINVT 1200
    EALQVEVANL AIPHTVSGTG HVTLSIGIAV YTPERHINPN ALVKAADLAL 1250
    YEAKAKGRNQ WLAYEGSQLP HVDGEV 1276
    Length:1,276
    Mass (Da):144,687
    Last modified:November 1, 1996 - v1
    Checksum:i318CF3A73962D99E
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000022 Genomic DNA. Translation: BAA10536.1.
    PIRiS75801.
    RefSeqiNP_442466.1. NC_000911.1.
    YP_005652527.1. NC_017277.1.
    YP_007452342.1. NC_020286.1.

    Genome annotation databases

    EnsemblBacteriaiBAA10536; BAA10536; BAA10536.
    GeneIDi952361.
    KEGGisyn:sll0821.
    syy:SYNGTS_2574.
    syz:MYO_125990.
    PATRICi23842638. VBISynSp132158_2858.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000022 Genomic DNA. Translation: BAA10536.1 .
    PIRi S75801.
    RefSeqi NP_442466.1. NC_000911.1.
    YP_005652527.1. NC_017277.1.
    YP_007452342.1. NC_020286.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4BWI X-ray 2.60 A/B 2-424 [» ]
    ProteinModelPortali Q55434.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-48801N.
    IntActi Q55434. 11 interactions.
    STRINGi 1148.sll0821.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAA10536 ; BAA10536 ; BAA10536 .
    GeneIDi 952361.
    KEGGi syn:sll0821.
    syy:SYNGTS_2574.
    syz:MYO_125990.
    PATRICi 23842638. VBISynSp132158_2858.

    Phylogenomic databases

    eggNOGi COG2203.
    KOi K02488.
    OMAi AIHQGEL.
    OrthoDBi EOG6G4VQG.

    Family and domain databases

    Gene3Di 3.20.20.450. 1 hit.
    3.30.450.40. 4 hits.
    InterProi IPR001054. A/G_cyclase.
    IPR001633. Diguanylate_PEstase_EAL_dom.
    IPR003018. GAF.
    IPR029016. GAF_dom_like.
    IPR000160. GGDEF_dom.
    IPR016132. Phyto_chromo_attachment.
    IPR001294. Phytochrome.
    IPR013515. Phytochrome_cen-reg.
    [Graphical view ]
    Pfami PF00563. EAL. 1 hit.
    PF01590. GAF. 2 hits.
    PF00990. GGDEF. 2 hits.
    PF00360. PHY. 1 hit.
    [Graphical view ]
    PRINTSi PR01033. PHYTOCHROME.
    SMARTi SM00052. EAL. 1 hit.
    SM00065. GAF. 3 hits.
    SM00267. GGDEF. 2 hits.
    [Graphical view ]
    SUPFAMi SSF141868. SSF141868. 1 hit.
    SSF55073. SSF55073. 2 hits.
    SSF55781. SSF55781. 4 hits.
    TIGRFAMsi TIGR00254. GGDEF. 2 hits.
    PROSITEi PS50883. EAL. 1 hit.
    PS50887. GGDEF. 2 hits.
    PS50046. PHYTOCHROME_2. 2 hits.
    [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. "A second photochromic bacteriophytochrome from Synechocystis sp. PCC 6803: spectral analysis and down-regulation by light."
      Park C.-M., Kim J.-I., Yang S.-S., Kang J.-G., Kang J.-H., Shim J.-Y., Chung Y.-H., Park Y.-M., Song P.-S.
      Biochemistry 39:10840-10847(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: CHROMOPHORE 1 BINDING, MUTAGENESIS OF CYS-129 AND HIS-130.
    4. "Defining the bilin lyase domain: lessons from the extended phytochrome superfamily."
      Wu S.-H., Lagarias J.C.
      Biochemistry 39:13487-13495(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION OF TWO BILIN LYASE DOMAINS.

    Entry informationi

    Entry nameiPHY2_SYNY3
    AccessioniPrimary (citable) accession number: Q55434
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 11, 2001
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 113 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    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