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Protein

Phytochrome-like protein cph2

Gene

cph2

Organism
Synechocystis sp. (strain PCC 6803 / Kazusa)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

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)DescriptionActionsGraphical viewLength
Binding sitei129Tetrapyrrole chromophore 1 (covalent; via 1 link)Curated1
Binding sitei1022Tetrapyrrole chromophore 2 (covalent; via 1 link)Sequence analysis1

GO - Molecular functioni

  • red or far-red light photoreceptor activity Source: UniProtKB

GO - Biological processi

  • detection of visible light Source: InterPro
  • protein-chromophore linkage Source: UniProtKB
  • red, far-red light phototransduction Source: UniProtKB
  • regulation of transcription, DNA-templated Source: InterPro
Complete GO annotation...

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 lineageiBacteriaCyanobacteriaSynechococcalesMerismopediaceaeSynechocystis
Proteomesi
  • UP000001425 Componenti: Chromosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi129C → S: Holoprotein exhibits no photochromic activity. 1 Publication1
Mutagenesisi130H → F: Chromophore ligating activity (in vitro) is 30-40% lower than wild-type. 1 Publication1
Mutagenesisi130H → Q: Chromophore ligating activity (in vitro) is about 10% more efficient than wild-type. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001720021 – 1276Phytochrome-like protein cph2Add BLAST1276

Post-translational modificationi

Contains two covalently linked tetrapyrrole chromophores.

Proteomic databases

PRIDEiQ55434.

Interactioni

Protein-protein interaction databases

DIPiDIP-48801N.
IntActiQ55434. 11 interactors.

Structurei

Secondary structure

11276
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi7 – 18Combined sources12
Helixi24 – 39Combined sources16
Beta strandi42 – 49Combined sources8
Beta strandi55 – 62Combined sources8
Turni64 – 66Combined sources3
Helixi77 – 79Combined sources3
Helixi82 – 89Combined sources8
Beta strandi93 – 98Combined sources6
Helixi99 – 101Combined sources3
Beta strandi103 – 110Combined sources8
Helixi128 – 136Combined sources9
Beta strandi140 – 149Combined sources10
Beta strandi152 – 163Combined sources12
Helixi169 – 215Combined sources47
Helixi219 – 232Combined sources14
Beta strandi236 – 242Combined sources7
Beta strandi252 – 257Combined sources6
Helixi263 – 266Combined sources4
Helixi269 – 275Combined sources7
Beta strandi313 – 316Combined sources4
Helixi317 – 320Combined sources4
Turni331 – 333Combined sources3
Helixi334 – 336Combined sources3
Beta strandi338 – 347Combined sources10
Beta strandi352 – 361Combined sources10
Beta strandi363 – 371Combined sources9
Beta strandi388 – 395Combined sources8
Helixi401 – 418Combined sources18

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4BWIX-ray2.60A/B2-424[»]
ProteinModelPortaliQ55434.
SMRiQ55434.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini23 – 186GAF 1Add BLAST164
Domaini461 – 598GGDEF 1PROSITE-ProRule annotationAdd BLAST138
Domaini607 – 861EALPROSITE-ProRule annotationAdd BLAST255
Domaini939 – 1080GAF 2Add BLAST142
Domaini1130 – 1266GGDEF 2PROSITE-ProRule annotationAdd BLAST137

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 197Bilin lyase domain 1Add BLAST197
Regioni939 – 1075Bilin lyase domain 2Add BLAST137

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

InParanoidiQ55434.
OMAiAIHQGEL.

Family and domain databases

CDDicd01948. EAL. 1 hit.
cd01949. GGDEF. 2 hits.
Gene3Di3.20.20.450. 1 hit.
3.30.450.40. 4 hits.
InterProiIPR001633. EAL_dom.
IPR003018. GAF.
IPR029016. GAF_dom-like.
IPR000160. GGDEF_dom.
IPR029787. Nucleotide_cyclase.
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

        10         20         30         40         50
MNPNRSLEDF LRNVINKFHR ALTLRETLQV IVEEARIFLG VDRVKIYKFA
60 70 80 90 100
SDGSGEVLAE AVNRAALPSL LGLHFPVEDI PPQAREELGN QRKMIAVDVA
110 120 130 140 150
HRRKKSHELS GRISPTEHSN GHYTTVDSCH IQYLLAMGVL SSLTVPVMQD
160 170 180 190 200
QQLWGIMAVH HSKPRRFTEQ EWETMALLSK EVSLAITQSQ LSRQVHQQQV
210 220 230 240 250
QEALVQRLET TVAQYGDRPE TWQYALETVG QAVEADGAVL YIAPDLTGSV
260 270 280 290 300
AQHYQWNLRF DWGNWLETSL WQELMRGQPS AAMEPMAAVQ STWEKPRPFT
310 320 330 340 350
SVAPLPPTNC VPHGYTLGEL EQRSDWIAPP ESLSAENFQS FLIVPLAADQ
360 370 380 390 400
QWVGSLILLR KEKSLVKHWA GKRGIDRRNI LPRLSFEAWE ETQKLVPTWN
410 420 430 440 450
RSERKLAQVA STQLYMAITQ QFVTRLITQQ TAYDPLTQLP NWIIFNRQLT
460 470 480 490 500
LALLDALYEG KMVGVLVIAM DRFKRINESF GHKTGDGLLQ EVADRLNQKL
510 520 530 540 550
SPLAAYSPLL SRWHGDGFTI LLTQISDNQE MIPLCERLLS TFQEPFFLQG
560 570 580 590 600
QPIYLTASMG ISTAPYDGET AESLLKFAEI ALTRAKCQGK NTYQFYRPQD
610 620 630 640 650
SAPMLDRLTL ESDLRQALTN QEFVLYFQPQ VALDTGKLLG VEALVRWQHP
660 670 680 690 700
RLGQVAPDVF IPLAEELGLI NHLGQWVLET ACATHQHFFR ETGRRLRMAV
710 720 730 740 750
NISARQFQDE KWLNSVLECL KRTGMPPEDL ELEITESLMM EDIKGTVVLL
760 770 780 790 800
HRLREEGVQV AIDDFGTGYS SLSILKQLPI HRLKIDKSFV NDLLNEGADT
810 820 830 840 850
AIIQYVIDLA NGLNLETVAE GIESEAQLQR LQKMGCHLGQ GYFLTRPLPA
860 870 880 890 900
EAMMTYLYYP QILDFGPTPP LPKVALPETE TEAGQGNVGD RPLPNSLNRE
910 920 930 940 950
NPWTEKLHDY VLLKERLQQR NVKEKLVLKI ANKIRASLNI NDILYSTVTE
960 970 980 990 1000
VRQFLNTDRV VLFKFNSQWS GQVVTESHND FCRSIINDEI DDPCFKGHYL
1010 1020 1030 1040 1050
RLYREGRVRA VSDIEKADLA DCHKELLRHY QVKANLVVPV VFNENLWGLL
1060 1070 1080 1090 1100
IAHECKTPRY WQEEDLQLLM ELATQVAIAI HQGELYEQLE TANIRLQQIS
1110 1120 1130 1140 1150
SLDALTQVGN RYLFDSTLER EWQRLQRIRE PLALLLCDVD FFKGFNDNYG
1160 1170 1180 1190 1200
HPAGDRCLKK IADAMAKVAK RPTDLVARYG GEEFAIILSE TSLEGAINVT
1210 1220 1230 1240 1250
EALQVEVANL AIPHTVSGTG HVTLSIGIAV YTPERHINPN ALVKAADLAL
1260 1270
YEAKAKGRNQ WLAYEGSQLP HVDGEV
Length:1,276
Mass (Da):144,687
Last modified:November 1, 1996 - v1
Checksum:i318CF3A73962D99E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000022 Genomic DNA. Translation: BAA10536.1.
PIRiS75801.

Genome annotation databases

EnsemblBacteriaiBAA10536; BAA10536; BAA10536.
KEGGisyn:sll0821.
PATRICi23842638. VBISynSp132158_2858.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000022 Genomic DNA. Translation: BAA10536.1.
PIRiS75801.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4BWIX-ray2.60A/B2-424[»]
ProteinModelPortaliQ55434.
SMRiQ55434.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-48801N.
IntActiQ55434. 11 interactors.

Proteomic databases

PRIDEiQ55434.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA10536; BAA10536; BAA10536.
KEGGisyn:sll0821.
PATRICi23842638. VBISynSp132158_2858.

Phylogenomic databases

InParanoidiQ55434.
OMAiAIHQGEL.

Family and domain databases

CDDicd01948. EAL. 1 hit.
cd01949. GGDEF. 2 hits.
Gene3Di3.20.20.450. 1 hit.
3.30.450.40. 4 hits.
InterProiIPR001633. EAL_dom.
IPR003018. GAF.
IPR029016. GAF_dom-like.
IPR000160. GGDEF_dom.
IPR029787. Nucleotide_cyclase.
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]
ProtoNetiSearch...

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: November 2, 2016
This is version 125 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

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 one 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.