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Q55434 (PHY2_SYNY3) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 109. 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·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Phytochrome-like protein cph2
Alternative name(s):
Bacteriophytochrome cph2
Gene names
Name:cph2
Ordered Locus Names:sll0821
OrganismSynechocystis sp. (strain PCC 6803 / Kazusa) [Reference proteome] [HAMAP]
Taxonomic identifier1111708 [NCBI]
Taxonomic lineageBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechocystis

Protein attributes

Sequence length1276 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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.

Domain

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. Ref.4

Post-translational modification

Contains two covalently linked tetrapyrrole chromophores.

Sequence similarities

Belongs to the phytochrome family.

Contains 1 EAL domain.

Contains 2 GAF domains.

Contains 2 GGDEF domains.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 12761276Phytochrome-like protein cph2
PRO_0000172002

Regions

Domain23 – 186164GAF 1
Domain461 – 598138GGDEF 1
Domain607 – 861255EAL
Domain939 – 1080142GAF 2
Domain1130 – 1266137GGDEF 2
Region1 – 197197Bilin lyase domain 1
Region939 – 1075137Bilin lyase domain 2

Sites

Binding site1291Tetrapyrrole chromophore 1 (covalent; via 1 link) Probable
Binding site10221Tetrapyrrole chromophore 2 (covalent; via 1 link) Potential

Experimental info

Mutagenesis1291C → S: Holoprotein exhibits no photochromic activity. Ref.3
Mutagenesis1301H → F: Chromophore ligating activity (in vitro) is 30-40% lower than wild-type. Ref.3
Mutagenesis1301H → Q: Chromophore ligating activity (in vitro) is about 10% more efficient than wild-type. Ref.3

Secondary structure

...................................................... 1276
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q55434 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: 318CF3A73962D99E

FASTA1,276144,687
        10         20         30         40         50         60 
MNPNRSLEDF LRNVINKFHR ALTLRETLQV IVEEARIFLG VDRVKIYKFA SDGSGEVLAE 

        70         80         90        100        110        120 
AVNRAALPSL LGLHFPVEDI PPQAREELGN QRKMIAVDVA HRRKKSHELS GRISPTEHSN 

       130        140        150        160        170        180 
GHYTTVDSCH IQYLLAMGVL SSLTVPVMQD QQLWGIMAVH HSKPRRFTEQ EWETMALLSK 

       190        200        210        220        230        240 
EVSLAITQSQ LSRQVHQQQV QEALVQRLET TVAQYGDRPE TWQYALETVG QAVEADGAVL 

       250        260        270        280        290        300 
YIAPDLTGSV AQHYQWNLRF DWGNWLETSL WQELMRGQPS AAMEPMAAVQ STWEKPRPFT 

       310        320        330        340        350        360 
SVAPLPPTNC VPHGYTLGEL EQRSDWIAPP ESLSAENFQS FLIVPLAADQ QWVGSLILLR 

       370        380        390        400        410        420 
KEKSLVKHWA GKRGIDRRNI LPRLSFEAWE ETQKLVPTWN RSERKLAQVA STQLYMAITQ 

       430        440        450        460        470        480 
QFVTRLITQQ TAYDPLTQLP NWIIFNRQLT LALLDALYEG KMVGVLVIAM DRFKRINESF 

       490        500        510        520        530        540 
GHKTGDGLLQ EVADRLNQKL SPLAAYSPLL SRWHGDGFTI LLTQISDNQE MIPLCERLLS 

       550        560        570        580        590        600 
TFQEPFFLQG QPIYLTASMG ISTAPYDGET AESLLKFAEI ALTRAKCQGK NTYQFYRPQD 

       610        620        630        640        650        660 
SAPMLDRLTL ESDLRQALTN QEFVLYFQPQ VALDTGKLLG VEALVRWQHP RLGQVAPDVF 

       670        680        690        700        710        720 
IPLAEELGLI NHLGQWVLET ACATHQHFFR ETGRRLRMAV NISARQFQDE KWLNSVLECL 

       730        740        750        760        770        780 
KRTGMPPEDL ELEITESLMM EDIKGTVVLL HRLREEGVQV AIDDFGTGYS SLSILKQLPI 

       790        800        810        820        830        840 
HRLKIDKSFV NDLLNEGADT AIIQYVIDLA NGLNLETVAE GIESEAQLQR LQKMGCHLGQ 

       850        860        870        880        890        900 
GYFLTRPLPA EAMMTYLYYP QILDFGPTPP LPKVALPETE TEAGQGNVGD RPLPNSLNRE 

       910        920        930        940        950        960 
NPWTEKLHDY VLLKERLQQR NVKEKLVLKI ANKIRASLNI NDILYSTVTE VRQFLNTDRV 

       970        980        990       1000       1010       1020 
VLFKFNSQWS GQVVTESHND FCRSIINDEI DDPCFKGHYL RLYREGRVRA VSDIEKADLA 

      1030       1040       1050       1060       1070       1080 
DCHKELLRHY QVKANLVVPV VFNENLWGLL IAHECKTPRY WQEEDLQLLM ELATQVAIAI 

      1090       1100       1110       1120       1130       1140 
HQGELYEQLE TANIRLQQIS SLDALTQVGN RYLFDSTLER EWQRLQRIRE PLALLLCDVD 

      1150       1160       1170       1180       1190       1200 
FFKGFNDNYG HPAGDRCLKK IADAMAKVAK RPTDLVARYG GEEFAIILSE TSLEGAINVT 

      1210       1220       1230       1240       1250       1260 
EALQVEVANL AIPHTVSGTG HVTLSIGIAV YTPERHINPN ALVKAADLAL YEAKAKGRNQ 

      1270 
WLAYEGSQLP HVDGEV 

« 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 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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
BA000022 Genomic DNA. Translation: BAA10536.1.
PIRS75801.
RefSeqNP_442466.1. NC_000911.1.
YP_005652527.1. NC_017277.1.
YP_007452342.1. NC_020286.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
4BWIX-ray2.60A/B2-424[»]
ProteinModelPortalQ55434.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-48801N.
IntActQ55434. 11 interactions.
STRING1148.sll0821.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAA10536; BAA10536; BAA10536.
GeneID12253839.
14618023.
952361.
KEGGsyn:sll0821.
syy:SYNGTS_2574.
syz:MYO_125990.
PATRIC23842638. VBISynSp132158_2858.

Phylogenomic databases

eggNOGCOG2203.
KOK02488.
OMAAIHQGEL.
OrthoDBEOG6G4VQG.
ProtClustDBCLSK2393495.

Family and domain databases

Gene3D3.20.20.450. 1 hit.
InterProIPR001054. A/G_cyclase.
IPR001633. Diguanylate_PEstase_EAL_dom.
IPR003018. GAF.
IPR000160. GGDEF_dom.
IPR016132. Phyto_chromo_attachment.
IPR001294. Phytochrome.
IPR013515. Phytochrome_cen-reg.
[Graphical view]
PfamPF00563. EAL. 1 hit.
PF01590. GAF. 2 hits.
PF00990. GGDEF. 2 hits.
PF00360. PHY. 1 hit.
[Graphical view]
PRINTSPR01033. PHYTOCHROME.
SMARTSM00052. EAL. 1 hit.
SM00065. GAF. 3 hits.
SM00267. GGDEF. 2 hits.
[Graphical view]
SUPFAMSSF141868. SSF141868. 1 hit.
SSF55073. SSF55073. 2 hits.
TIGRFAMsTIGR00254. GGDEF. 2 hits.
PROSITEPS50883. EAL. 1 hit.
PS50887. GGDEF. 2 hits.
PS50046. PHYTOCHROME_2. 2 hits.
[Graphical view]
ProtoNetSearch...

Entry information

Entry namePHY2_SYNY3
AccessionPrimary (citable) accession number: Q55434
Entry history
Integrated into UniProtKB/Swiss-Prot: January 11, 2001
Last sequence update: November 1, 1996
Last modified: April 16, 2014
This is version 109 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