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Q79PF4

- KAIC_SYNE7

UniProt

Q79PF4 - KAIC_SYNE7

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Protein

Circadian clock protein kinase KaiC

Gene

kaiC

Organism
Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

Core component of the KaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. Binds to DNA. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction.2 Publications

Catalytic activityi

ATP + a protein = ADP + a phosphoprotein.

Cofactori

Magnesium.1 Publication

Enzyme regulationi

The interaction with KaiA enhances its phosphorylation status, while the interaction with KaiB decreases it. A KaiA dimer is sufficient to enhance KaiC phosphorylation.3 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi295 – 2951Magnesium
Metal bindingi318 – 3181Magnesium
Metal bindingi319 – 3191Magnesium
Metal bindingi378 – 3781Magnesium

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi46 – 538ATP
Nucleotide bindingi288 – 2958ATP

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-HAMAP
  2. DNA binding Source: UniProtKB-KW
  3. identical protein binding Source: IntAct
  4. magnesium ion binding Source: UniProtKB-HAMAP
  5. protein serine/threonine/tyrosine kinase activity Source: UniProtKB-HAMAP
  6. protein serine/threonine kinase activity Source: UniProtKB-KW

GO - Biological processi

  1. circadian rhythm Source: UniProtKB-HAMAP
  2. entrainment of circadian clock Source: UniProtKB
  3. negative regulation of circadian rhythm Source: UniProtKB
  4. regulation of phosphorelay signal transduction system Source: CACAO
  5. regulation of transcription, DNA-templated Source: UniProtKB-KW
  6. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Kinase, Repressor, Serine/threonine-protein kinase, Transferase

Keywords - Biological processi

Biological rhythms, Transcription, Transcription regulation

Keywords - Ligandi

ATP-binding, DNA-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciSYNEL:SYNPCC7942_1216-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Circadian clock protein kinase KaiC (EC:2.7.11.1)
Gene namesi
Name:kaiC
Ordered Locus Names:Synpcc7942_1216
ORF Names:see0011
OrganismiSynechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)
Taxonomic identifieri1140 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
ProteomesiUP000002717: Chromosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi52 – 521K → A: Induces an arrhythmic phenotype. 1 Publication
Mutagenesisi71 – 711G → A: Lowers the amplitude and distords the waveform of the circadian rhythm. 1 Publication
Mutagenesisi87 – 871A → V in kaiC1; shortens the period of the circadian rhythm to 22 hours.
Mutagenesisi114 – 1141G → A: Extends the period of the circadian rhythm to 27 hours. 1 Publication
Mutagenesisi115 – 1151Q → A: Abolishes the circadian rhythm. 1 Publication
Mutagenesisi157 – 1571S → C in kaiC2; extends the period of the circadian rhythm to 29 hours.
Mutagenesisi215 – 2151R → C in kaiC3; shortens the period of the circadian rhythm to 16 hours and decreases the interaction with KaiA.
Mutagenesisi236 – 2361P → S in kaiC4; extends the period of the circadian rhythm to 28 hours.
Mutagenesisi248 – 2481P → L in kaiC6; induces a low amplitude phenotype and decreases the interaction with KaiA.
Mutagenesisi248 – 2481P → S in kaiC5; induces an arrhythmic phenotype.
Mutagenesisi253 – 2531R → H in kaiC7; extends the period of the circadian rhythm to 40 hours.
Mutagenesisi273 – 2731M → I in kaiC8; extends the period of the circadian rhythm to 37 hours.
Mutagenesisi294 – 2941K → A: Induces a long period phenotype. 1 Publication
Mutagenesisi321 – 3211R → Q in kaiC9; shortens the period of the circadian rhythm to 21 hours.
Mutagenesisi409 – 4091T → A in kaiC10; extends the period of the circadian rhythm to 27 hours.
Mutagenesisi421 – 4211G → R in kaiC11; extends the period of the circadian rhythm to 44 hours and increases the interaction with KaiA.
Mutagenesisi422 – 4221A → T in kaiC15; able to suppress the kaiA2 extended phenotype.
Mutagenesisi432 – 4321T → A: Loss of function. 1 Publication
Mutagenesisi442 – 4421Y → H in kaiC12; extends the period of the circadian rhythm to 60 hours and increases the interaction with KaiA.
Mutagenesisi460 – 4601G → E in kaiC13; induces an arrhythmic phenotype.
Mutagenesisi495 – 4951T → A in kaiC14; induces an arrhythmic phenotype.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 519519Circadian clock protein kinase KaiCPRO_0000217782Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei432 – 4321Phosphothreonine; by autocatalysis

Post-translational modificationi

Phosphorylated on serine/threonine residues by autocatalysis. Both phosphorylated and unphosphorylated forms exist. Can probably autophosphorylate and autodephosphorylate. Phosphorylated form correlates with clock speed.3 Publications

Keywords - PTMi

Phosphoprotein

PTM databases

PhosSiteiP0501119.

Expressioni

Developmental stagei

Accumulates in a circadian fashion, peaking at circadian time (CT) 15-18.1 Publication

Inductioni

Down-regulated by itself.1 Publication

Interactioni

Subunit structurei

Homohexamer; hexamerization is dependent on ATP-binding. Core component of the KaiABC complex, at least composed of a KaiC homohexamer, a KaiB dimer and two KaiA dimers. Interacts directly with SasA.5 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
itself9EBI-592287,EBI-592287
kaiAQ79PF617EBI-592287,EBI-592281
kaiBQ79PF510EBI-592287,EBI-619150
sasAQ069046EBI-592287,EBI-626872

Protein-protein interaction databases

DIPiDIP-33330N.
IntActiQ79PF4. 3 interactions.
MINTiMINT-8094424.
STRINGi1140.Synpcc7942_1216.

Structurei

Secondary structure

1
519
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi28 – 314
Beta strandi34 – 374
Beta strandi40 – 478
Helixi52 – 6716
Beta strandi71 – 788
Helixi80 – 878
Helixi88 – 903
Helixi94 – 996
Beta strandi102 – 1076
Helixi121 – 13717
Beta strandi140 – 1456
Turni148 – 1503
Turni152 – 1543
Helixi157 – 17418
Beta strandi177 – 1837
Beta strandi185 – 1895
Beta strandi191 – 1955
Helixi197 – 2004
Beta strandi202 – 2109
Turni212 – 2143
Beta strandi217 – 2259
Beta strandi233 – 2408
Beta strandi243 – 2464
Turni249 – 2513
Helixi268 – 2736
Beta strandi276 – 2816
Beta strandi283 – 2886
Helixi294 – 30613
Turni307 – 3093
Beta strandi312 – 3198
Helixi321 – 3299
Turni330 – 3323
Helixi335 – 3406
Beta strandi343 – 3464
Helixi351 – 3533
Helixi356 – 36813
Beta strandi373 – 3786
Helixi380 – 3834
Beta strandi385 – 3873
Helixi389 – 40517
Beta strandi409 – 4157
Beta strandi417 – 4204
Beta strandi423 – 4297
Turni431 – 4333
Beta strandi435 – 44511
Beta strandi448 – 46114
Beta strandi468 – 4725
Beta strandi477 – 4826
Beta strandi486 – 4883
Helixi489 – 4913
Turni502 – 5054
Helixi506 – 5083
Turni510 – 5123
Beta strandi514 – 5163

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1TF7X-ray2.80A/B/C/D/E/F1-519[»]
1U9IX-ray2.80A/B/C/D/E/F1-519[»]
2GBLX-ray2.80A/B/C/D/E/F1-519[»]
3DVLX-ray2.80A/B/C/D/E/F1-519[»]
3JZMX-ray2.90A/B/C/D/E/F1-519[»]
3K09X-ray3.20A/B/C/D/E/F1-519[»]
3K0AX-ray3.00A/B/C/D/E/F1-519[»]
3K0CX-ray3.30A/B/C/D/E/F1-519[»]
3K0EX-ray3.20A/B/C/D/E/F1-519[»]
3K0FX-ray3.00A/B/C/D/E/F1-519[»]
3S1AX-ray3.00A/B/C/D/E/F1-519[»]
4DUGX-ray3.30A/B/C/D/E/F1-519[»]
4IJMX-ray3.35A/B/C/D/E/F14-519[»]
ProteinModelPortaliQ79PF4.
SMRiQ79PF4. Positions 14-519.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ79PF4.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini19 – 260242KaiC 1Add
BLAST
Domaini261 – 493233KaiC 2Add
BLAST

Domaini

The KaiC domains mediate the interaction with KaiA.

Sequence similaritiesi

Belongs to the KaiC family.Curated
Contains 2 kaiC domains.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiCOG0467.
HOGENOMiHOG000230416.
KOiK08482.
OrthoDBiEOG6ZPSVX.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
HAMAPiMF_01836. KaiC.
InterProiIPR014774. Circ_KaiC/RadA.
IPR013503. Circadian_KaiC.
IPR010624. KaiC_dom.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF06745. KaiC. 2 hits.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 2 hits.
TIGRFAMsiTIGR02655. circ_KaiC. 1 hit.
PROSITEiPS51146. KAIC. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q79PF4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTSAEMTSPN NNSEHQAIAK MRTMIEGFDD ISHGGLPIGR STLVSGTSGT
60 70 80 90 100
GKTLFSIQFL YNGIIEFDEP GVFVTFEETP QDIIKNARSF GWDLAKLVDE
110 120 130 140 150
GKLFILDASP DPEGQEVVGG FDLSALIERI NYAIQKYRAR RVSIDSVTSV
160 170 180 190 200
FQQYDASSVV RRELFRLVAR LKQIGATTVM TTERIEEYGP IARYGVEEFV
210 220 230 240 250
SDNVVILRNV LEGERRRRTL EILKLRGTSH MKGEYPFTIT DHGINIFPLG
260 270 280 290 300
AMRLTQRSSN VRVSSGVVRL DEMCGGGFFK DSIILATGAT GTGKTLLVSR
310 320 330 340 350
FVENACANKE RAILFAYEES RAQLLRNAYS WGMDFEEMER QNLLKIVCAY
360 370 380 390 400
PESAGLEDHL QIIKSEINDF KPARIAIDSL SALARGVSNN AFRQFVIGVT
410 420 430 440 450
GYAKQEEITG LFTNTSDQFM GAHSITDSHI STITDTIILL QYVEIRGEMS
460 470 480 490 500
RAINVFKMRG SWHDKAIREF MISDKGPDIK DSFRNFERII SGSPTRITVD
510
EKSELSRIVR GVQEKGPES
Length:519
Mass (Da):58,003
Last modified:July 5, 2004 - v1
Checksum:i855DFE131EFFF3CF
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AB010691 Genomic DNA. Translation: BAA37103.1.
AY120853 Genomic DNA. Translation: AAM82686.1.
CP000100 Genomic DNA. Translation: ABB57246.1.
PIRiT44269.
RefSeqiYP_400233.1. NC_007604.1.

Genome annotation databases

EnsemblBacteriaiABB57246; ABB57246; Synpcc7942_1216.
GeneIDi3773504.
KEGGisyf:Synpcc7942_1216.
PATRICi23787739. VBISynElo51371_1398.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AB010691 Genomic DNA. Translation: BAA37103.1 .
AY120853 Genomic DNA. Translation: AAM82686.1 .
CP000100 Genomic DNA. Translation: ABB57246.1 .
PIRi T44269.
RefSeqi YP_400233.1. NC_007604.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1TF7 X-ray 2.80 A/B/C/D/E/F 1-519 [» ]
1U9I X-ray 2.80 A/B/C/D/E/F 1-519 [» ]
2GBL X-ray 2.80 A/B/C/D/E/F 1-519 [» ]
3DVL X-ray 2.80 A/B/C/D/E/F 1-519 [» ]
3JZM X-ray 2.90 A/B/C/D/E/F 1-519 [» ]
3K09 X-ray 3.20 A/B/C/D/E/F 1-519 [» ]
3K0A X-ray 3.00 A/B/C/D/E/F 1-519 [» ]
3K0C X-ray 3.30 A/B/C/D/E/F 1-519 [» ]
3K0E X-ray 3.20 A/B/C/D/E/F 1-519 [» ]
3K0F X-ray 3.00 A/B/C/D/E/F 1-519 [» ]
3S1A X-ray 3.00 A/B/C/D/E/F 1-519 [» ]
4DUG X-ray 3.30 A/B/C/D/E/F 1-519 [» ]
4IJM X-ray 3.35 A/B/C/D/E/F 14-519 [» ]
ProteinModelPortali Q79PF4.
SMRi Q79PF4. Positions 14-519.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-33330N.
IntActi Q79PF4. 3 interactions.
MINTi MINT-8094424.
STRINGi 1140.Synpcc7942_1216.

PTM databases

PhosSitei P0501119.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABB57246 ; ABB57246 ; Synpcc7942_1216 .
GeneIDi 3773504.
KEGGi syf:Synpcc7942_1216.
PATRICi 23787739. VBISynElo51371_1398.

Phylogenomic databases

eggNOGi COG0467.
HOGENOMi HOG000230416.
KOi K08482.
OrthoDBi EOG6ZPSVX.

Enzyme and pathway databases

BioCyci SYNEL:SYNPCC7942_1216-MONOMER.

Miscellaneous databases

EvolutionaryTracei Q79PF4.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
HAMAPi MF_01836. KaiC.
InterProi IPR014774. Circ_KaiC/RadA.
IPR013503. Circadian_KaiC.
IPR010624. KaiC_dom.
IPR027417. P-loop_NTPase.
[Graphical view ]
Pfami PF06745. KaiC. 2 hits.
[Graphical view ]
SUPFAMi SSF52540. SSF52540. 2 hits.
TIGRFAMsi TIGR02655. circ_KaiC. 1 hit.
PROSITEi PS51146. KAIC. 2 hits.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Expression of a gene cluster kaiABC as a circadian feedback process in cyanobacteria."
    Ishiura M., Kutsuna S., Aoki S., Iwasaki H., Andersson C.R., Tanabe A., Golden S.S., Johnson C.H., Kondo T.
    Science 281:1519-1523(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION, MUTANTS KAIC1; KAIC2; KAIC3; KAIC4; KAIC5; KAIC6; KAIC7; KAIC8; KAIC9; KAIC10; KAIC11; KAIC12; KAIC13 AND KAIC14.
  2. "Synechococcus elongatus PCC7942 cosmid 7G3."
    Holtman C.K., Sandoval P., Chen Y., Socias T., Mohler B.J., McMurtry S., Gonzalez A., Salinas I., Golden S.S., Youderian P.
    Submitted (JUN-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. "Complete sequence of chromosome 1 of Synechococcus elongatus PCC 7942."
    US DOE Joint Genome Institute
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Schmutz J., Larimer F., Land M., Kyrpides N., Lykidis A., Richardson P.
    Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PCC 7942.
  4. "Physical interactions among circadian clock proteins KaiA, KaiB and KaiC in cyanobacteria."
    Iwasaki H., Taniguchi Y., Ishiura M., Kondo T.
    EMBO J. 18:1137-1145(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH KAIA AND KAIB.
  5. "Nucleotide binding and autophosphorylation of the clock protein KaiC as a circadian timing process of cyanobacteria."
    Nishiwaki T., Iwasaki H., Ishiura M., Kondo T.
    Proc. Natl. Acad. Sci. U.S.A. 97:495-499(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: ATP-BINDING, AUTOPHOSPHORYLATION, MUTAGENESIS OF LYS-52; GLY-71; GLY-114; GLN-115 AND LYS-294.
  6. "A kaiC-interacting sensory histidine kinase, SasA, necessary to sustain robust circadian oscillation in cyanobacteria."
    Iwasaki H., Williams S.B., Kitayama Y., Ishiura M., Golden S.S., Kondo T.
    Cell 101:223-233(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH SASA.
  7. "Two KaiA-binding domains of cyanobacterial circadian clock protein KaiC."
    Taniguchi Y., Yamaguchi A., Hijikata A., Iwasaki H., Kamagata K., Ishiura M., Go M., Kondo T.
    FEBS Lett. 496:86-90(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH KAIA, MUTANTS KAIC3; KAIC6; KAIC11 AND KAIC12.
  8. "KaiA-stimulated KaiC phosphorylation in circadian timing loops in cyanobacteria."
    Iwasaki H., Nishiwaki T., Kitayama Y., Nakajima M., Kondo T.
    Proc. Natl. Acad. Sci. U.S.A. 99:15788-15793(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION, ENZYME REGULATION, MUTANT KAIC15.
  9. "Circadian clock protein KaiC forms ATP-dependent hexameric rings and binds DNA."
    Mori T., Saveliev S.V., Xu Y., Stafford W.F., Cox M.M., Inman R.B., Johnson C.H.
    Proc. Natl. Acad. Sci. U.S.A. 99:17203-17208(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: HEXAMERIZATION, DNA-BINDING, ATP-BINDING.
  10. "Cyanobacterial circadian clockwork: roles of KaiA, KaiB and the kaiBC promoter in regulating KaiC."
    Xu Y., Mori T., Johnson C.H.
    EMBO J. 22:2117-2126(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: ENZYME REGULATION, PHOSPHORYLATION, INTERACTION WITH KAIB.
  11. "KaiB functions as an attenuator of KaiC phosphorylation in the cyanobacterial circadian clock system."
    Kitayama Y., Iwasaki H., Nishiwaki T., Kondo T.
    EMBO J. 22:2127-2134(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: ENZYME REGULATION, PHOSPHORYLATION, INTERACTION WITH KAIB.
  12. "Global gene repression by KaiC as a master process of prokaryotic circadian system."
    Nakahira Y., Katayama M., Miyashita H., Kutsuna S., Iwasaki H., Oyama T., Kondo T.
    Proc. Natl. Acad. Sci. U.S.A. 101:881-885(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION OF THE KAIABC COMPLEX, INDUCTION.
  13. "Stoichiometric interactions between cyanobacterial clock proteins KaiA and KaiC."
    Hayashi F., Ito H., Fujita M., Iwase R., Uzumaki T., Ishiura M.
    Biochem. Biophys. Res. Commun. 316:195-202(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: STOICHIOMETRY OF THE COMPLEX FORMED WITH KAIA.
  14. "Circadian rhythms in the synthesis and degradation of a master clock protein kaiC in cyanobacteria."
    Imai K., Nishiwaki T., Kondo T., Iwasaki H.
    J. Biol. Chem. 279:36534-36539(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: DEVELOPMENTAL STAGE.
  15. "Visualizing a circadian clock protein; crystal structure of kaiC and functional insights."
    Pattanayek R., Wang J., Mori T., Xu Y., Johnson C.H., Egli M.
    Mol. Cell 15:375-388(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF HEXAMER, COFACTOR, MUTAGENESIS OF THR-432.

Entry informationi

Entry nameiKAIC_SYNE7
AccessioniPrimary (citable) accession number: Q79PF4
Secondary accession number(s): Q31NX3, Q9Z3H2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: July 5, 2004
Last modified: October 29, 2014
This is version 98 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

'Kai' means 'cycle' in Japanese.

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

External Data

Dasty 3