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Q79PF6 (KAIA_SYNE7) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 74. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Circadian clock protein KaiA
Gene names
Name:kaiA
Ordered Locus Names:Synpcc7942_1218
ORF Names:see0009
OrganismSynechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2) [Complete proteome] [HAMAP]
Taxonomic identifier1140 [NCBI]
Taxonomic lineageBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus

Protein attributes

Sequence length284 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Component of the KaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria. The KaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction. In the complex, it enhances the phosphorylation status of KaiC. In contrast, the presence of KaiB in the complex decreases the phosphorylation status of KaiC, suggesting that KaiB acts by antagonizing the interaction between KaiA and KaiC. A KaiA dimer is sufficient to enhance KaiC hexamer phosphorylation. Ref.1 Ref.7 Ref.8 Ref.9

Subunit structure

Homodimer. Component of the KaiABC complex, at least composed of a KaiC homohexamer, a KaiB dimer and two KaiA dimers. The KaiABC complex also interacts with SasA. Ref.4 Ref.5 Ref.13

Developmental stage

Expressed constantly throughout the circadian cycle. Ref.9

Domain

The N-terminal part (1-102), which is also called pseudo-receiver domain, does not enhance KaiC autophosphorylation. It may have an amplitude-amplifier function and may be involved in transducing input signals to the KaiABC complex. This domain is not conserved in other species. Ref.13

The KaiA domain mediates the interaction with KaiC, the homodimerization, and is responsible for the clock oscillation function. Ref.13

Miscellaneous

'Kai' means 'cycle' in Japanese.

Sequence similarities

Contains 1 kaiA C-terminal domain.

Contains 1 kaiA N-terminal domain.

Caution

Ref.13 structure is derived from this sequence and not from the one of S.elongatus.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 284284Circadian clock protein KaiA
PRO_0000217871

Regions

Domain1 – 164164KaiA N-terminal
Domain174 – 282109KaiA C-terminal

Experimental info

Mutagenesis91I → T: Extends the period of the circadian rhythm to 29 hours. Ref.6
Mutagenesis161I → F: Extends the period of the circadian rhythm to 27 hours. Ref.6
Mutagenesis311L → P: Extends the period of the circadian rhythm to 27 hours. Ref.6
Mutagenesis361S → P: Extends the period of the circadian rhythm to 29 hours. Ref.6
Mutagenesis531C → S: Induces an arrhythmic phenotype. Ref.6
Mutagenesis761V → G: Extends the period of the circadian rhythm to 28 hours. Ref.6
Mutagenesis1031E → K in kaiA1; extends the period of the circadian rhythm to 33 hours and increases the interaction with KaiB.
Mutagenesis1131Q → R: Extends the period of the circadian rhythm to 33 hours. Ref.6
Mutagenesis1171Q → L: Extends the period of the circadian rhythm to 26 hours. Ref.6
Mutagenesis1191D → E: Extends the period of the circadian rhythm to 30 hours. Ref.6
Mutagenesis1191D → G: Extends the period of the circadian rhythm to 26 hours. Ref.6
Mutagenesis1311V → A: Extends the period of the circadian rhythm to 28 hours. Ref.6
Mutagenesis1361D → V: Extends the period of the circadian rhythm to 30 hours. Ref.6
Mutagenesis1361D → Y: Extends the period of the circadian rhythm to 29 hours. Ref.6
Mutagenesis1661Y → C in kaiA3; induces an arrhythmic phenotype and reduces the interaction with KaiC.
Mutagenesis1781F → S or I: Induces an arrhythmic phenotype. Ref.6
Mutagenesis1801R → H: Extends the period of the circadian rhythm to 26 hours. Ref.6
Mutagenesis1941M → T: Extends the period of the circadian rhythm to 26 hours. Ref.6
Mutagenesis2241F → S: Induces an arrhythmic phenotype. Ref.6
Mutagenesis2251F → S: Induces an arrhythmic phenotype. Ref.6
Mutagenesis2391E → G: Extends the period of the circadian rhythm to 28 hours. Ref.6
Mutagenesis2411M → T: Extends the period of the circadian rhythm to 38 hours. Ref.6
Mutagenesis2421D → V or G: Extends the period of the circadian rhythm to 27 hours. Ref.6
Mutagenesis2431E → A: Extends the period of the circadian rhythm to 34 hours. Ref.6
Mutagenesis2441F → V: Extends the period of the circadian rhythm to 26 hours. Ref.6
Mutagenesis2451A → D: Extends the period of the circadian rhythm to 26 hours. Ref.6
Mutagenesis2491R → H in kaiA1; extends the period of the circadian rhythm to 30 hours.
Mutagenesis2661I → V: Extends the period of the circadian rhythm to 27 hours. Ref.6
Mutagenesis2731C → Y: Extends the period of the circadian rhythm to 30 hours. Ref.6
Mutagenesis2741E → K in kaiA3; induces an arrhythmic phenotype.

Secondary structure

.................................................. 284
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q79PF6 [UniParc].

Last modified July 5, 2004. Version 1.
Checksum: 7C4F3B79FFDF59A2

FASTA28432,632
        10         20         30         40         50         60 
MLSQIAICIW VESTAILQDC QRALSADRYQ LQVCESGEML LEYAQTHRDQ IDCLILVAAN 

        70         80         90        100        110        120 
PSFRAVVQQL CFEGVVVPAI VVGDRDSEDP DEPAKEQLYH SAELHLGIHQ LEQLPYQVDA 

       130        140        150        160        170        180 
ALAEFLRLAP VETMADHIML MGANHDPELS SQQRDLAQRL QERLGYLGVY YKRDPDRFLR 

       190        200        210        220        230        240 
NLPAYESQKL HQAMQTSYRE IVLSYFSPNS NLNQSIDNFV NMAFFADVPV TKVVEIHMEL 

       250        260        270        280 
MDEFAKKLRV EGRSEDILLD YRLTLIDVIA HLCEMYRRSI PRET 

« Hide

References

« Hide 'large scale' references
[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 KAIA1; KAIA2 AND KAIA3.
[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 KAIC AND KAIB, MUTANT KAIA1.
[5]"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 KAIC, MUTANTS KAIA2 AND KAIA4.
[6]"Mutations in KaiA, a clock protein, extend the period of circadian rhythm in the cyanobacterium Synechococcus elongatus PCC 7942."
Nishimura H., Nakahira Y., Imai K., Tsuruhara A., Kondo H., Hayashi H., Hirai M., Saito H., Kondo T.
Microbiology 148:2903-2909(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: MUTAGENESIS OF ILE-9; ILE-16; LEU-31; SER-36; CYS-53; VAL-76; GLN-113; GLN-117; ASP-119; VAL-131; ASP-136; PHE-178; ARG-180; MET-194; PHE-224; PHE-225; GLU-239; MET-241; ASP-242; GLU-243; PHE-244; ALA-245; ILE-266 AND CYS-273.
[7]"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: FUNCTION.
[8]"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: FUNCTION.
[9]"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: FUNCTION, DEVELOPMENTAL STAGE.
[10]"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 KAIC.
[11]"Structure and function from the circadian clock protein KaiA of Synechococcus elongatus: a potential clock input mechanism."
Williams S.B., Vakonakis I., Golden S.S., LiWang A.C.
Proc. Natl. Acad. Sci. U.S.A. 99:15357-15362(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: STRUCTURE BY NMR OF 1-135.
[12]Erratum
Williams S.B., Vakonakis I., Golden S.S., LiWang A.C.
Proc. Natl. Acad. Sci. U.S.A. 100:763-763(2003)
[13]"Crystal structure of circadian clock protein KaiA from Synechococcus elongatus."
Ye S., Vakonakis I., Ioerger T.R., LiWang A.C., Sacchettini J.C.
J. Biol. Chem. 279:20511-20518(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.03 ANGSTROMS) OF 2-284, HOMODIMERIZATION, DOMAIN.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AB010691 Genomic DNA. Translation: BAA37101.1.
AY120853 Genomic DNA. Translation: AAM82684.1.
CP000100 Genomic DNA. Translation: ABB57248.1.
PIRT44267.
RefSeqYP_400235.1. NC_007604.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1M2ENMR-A1-135[»]
1M2FNMR-A1-135[»]
1R8JX-ray2.03A/B2-284[»]
4G86X-ray2.39A/B2-284[»]
ProteinModelPortalQ79PF6.
SMRQ79PF6. Positions 1-282.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-33329N.
IntActQ79PF6. 4 interactions.
STRING1140.Synpcc7942_1218.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABB57248; ABB57248; Synpcc7942_1218.
GeneID3773506.
KEGGsyf:Synpcc7942_1218.
PATRIC23787743. VBISynElo51371_1400.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGNOG123092.
HOGENOMHOG000276784.
KOK08480.
OrthoDBEOG65QWP2.

Enzyme and pathway databases

BioCycSYNEL:SYNPCC7942_1218-MONOMER.

Family and domain databases

Gene3D1.10.1240.30. 1 hit.
InterProIPR011006. CheY-like_superfamily.
IPR011648. Circadian_clock_KaiA.
IPR020844. Circadian_clock_KaiA_N.
IPR020856. Circadian_clock_protein_KaiA_C.
IPR017944. KaiA/RbsU_helical_domain.
[Graphical view]
PfamPF07688. KaiA. 1 hit.
[Graphical view]
SUPFAMSSF101215. SSF101215. 1 hit.
SSF52172. SSF52172. 1 hit.
PROSITEPS51431. KAIA_C. 1 hit.
PS51430. KAIA_N. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceQ79PF6.

Entry information

Entry nameKAIA_SYNE7
AccessionPrimary (citable) accession number: Q79PF6
Secondary accession number(s): Q31NX1, Q9Z3H4
Entry history
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: July 5, 2004
Last modified: June 11, 2014
This is version 74 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references