Two-component response regulator-like APRR1 - Arabidopsis thaliana (Mouse-ear cress)

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Q9LKL2 (APRR1_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 102. History...

Clusters with 100%, 90%, 50% identity |

Documents (2) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Two-component response regulator-like APRR1

Alternative name(s):
ABI3-interacting protein 1
Pseudo-response regulator 1
Timing of CAB expression 1

Gene names

Name:	APRR1
Synonyms:	AIP1, TOC1
Ordered Locus Names:	At5g61380
ORF Names:	MFB13.16

Organism

Arabidopsis thaliana (Mouse-ear cress) [Reference proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	618 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Controls photoperiodic flowering response. Component of the circadian clock. Expression of several members of the ARR-like family is controlled by circadian rhythm. The particular coordinated sequential expression of APRR9, APRR7, APRR5, APRR3 and APPR1 result to circadian waves that may be at the basis of the endogenous circadian clock. Positive regulator of CCA1 and LHY expression. Ref.7 Ref.16
Subunit structure	Interacts with PIF1, PIL2, PIF3, PIF4, PIL5, PIL6, ABI3 (via C-terminus), ADO1/ZTL, ADO2, APRR3 and TCP21/CHE. Both the phosphorylated and the dephosphorylated forms interact with ADO1/ZLT. Ref.3 Ref.9 Ref.10 Ref.11 Ref.12 Ref.13 Ref.14 Ref.16
Subcellular location	Nucleus Ref.14.
Tissue specificity	Expressed in leaves, flowers and siliques. Restricted to the vasculature. Ref.3 Ref.13
Induction	Expressed with a circadian rhythm showing a broad peak in the late day and early night. Negatively regulated by LHY and CCA1. Ref.8 Ref.14 Ref.15
Domain	The N-terminus (1-243) is required for interactions with ADO1/ZTL and APRR3.
Post-translational modification	Phosphorylated; during the day. Phosphorylation is required for optimal interaction with APRR3. Ref.14
Miscellaneous	Subject of targeted degradation by the 26S proteasome. ZEITLUPE (ADO1/ZTL) is the F-box protein that associates with the SCF (for Skp/Cullin/F-box) E3 ubiquitin ligase that is responsible for marking APRR1/TOC1 for turnover. CUL1 is the functional cullin for the SCF(ZTL) complex. APRR3 binding competitively inhibits the ADO1/ZTL interaction.
Sequence similarities	Belongs to the ARR-like family. Contains 1 CCT domain. Contains 1 response regulatory domain.
Caution	Lacks the phospho-accepting Asp (here Glu-71), present in the receiver domain, which is one of the conserved features of the two-component response regulators (ARRs) family.

Ontologies

Keywords
Biological process	Biological rhythms Flowering Transcription Transcription regulation Two-component regulatory system
Cellular component	Nucleus
Domain	Coiled coil
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	circadian rhythm Inferred from expression pattern Ref.2. Source: TAIR circumnutation Inferred from mutant phenotype PubMed 15908440. Source: TAIR flower development Inferred from electronic annotation. Source: UniProtKB-KW intracellular signal transduction Inferred from electronic annotation. Source: GOC negative regulation of gene expression Inferred from direct assay PubMed 22315425. Source: TAIR transcription, DNA-dependent Traceable author statement Ref.16. Source: UniProtKB
Cellular_component	nucleus Traceable author statement Ref.16. Source: UniProtKB
Molecular_function	DNA binding Inferred from direct assay PubMed 22315425. Source: TAIR phosphorelay response regulator activity Inferred from electronic annotation. Source: InterPro sequence-specific DNA binding transcription factor activity Inferred from direct assay PubMed 22315425. Source: TAIR
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct
ADO1	Q94BT6	6	EBI-618423,EBI-300691
APRR3	Q9LVG4	3	EBI-618423,EBI-1606968
PIL1	Q8L5W8	3	EBI-618423,EBI-630752

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 618

618

Two-component response regulator-like APRR1

PRO_0000081435

Regions

Domain

20 – 138

119

Response regulatory

Domain

533 – 575

CCT

Coiled coil

588 – 610

Potential

Compositional bias

595 – 605

Poly-Glu

Experimental info

Mutagenesis

562

A → V in toc1-1; causes shortened circadian rhythms in light-grown plants. Ref.2

Sequence conflict

126

R → L in CAB75508. Ref.2

Sequences

Sequence

Length

Mass (Da)

Tools

Q9LKL2 [UniParc].

Last modified October 1, 2000. Version 1.
Checksum: EDBE0AA0B7FAB61E
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FASTA

618

69,195

        10         20         30         40         50         60 
MDLNGECKGG DGFIDRSRVR ILLCDNDSTS LGEVFTLLSE CSYQVTAVKS ARQVIDALNA 

        70         80         90        100        110        120 
EGPDIDIILA EIDLPMAKGM KMLRYITRDK DLRRIPVIMM SRQDEVPVVV KCLKLGAADY 

       130        140        150        160        170        180 
LVKPLRTNEL LNLWTHMWRR RRMLGLAEKN MLSYDFDLVG SDQSDPNTNS TNLFSDDTDD 

       190        200        210        220        230        240 
RSLRSTNPQR GNLSHQENEW SVATAPVHAR DGGLGADGTA TSSLAVTAIE PPLDHLAGSH 

       250        260        270        280        290        300 
HEPMKRNSNP AQFSSAPKKS RLKIGESSAF FTYVKSTVLR TNGQDPPLVD GNGSLHLHRG 

       310        320        330        340        350        360 
LAEKFQVVAS EGINNTKQAR RATPKSTVLR TNGQDPPLVN GNGSHHLHRG AAEKFQVVAS 

       370        380        390        400        410        420 
EGINNTKQAH RSRGTEQYHS QGETLQNGAS YPHSLERSRT LPTSMESHGR NYQEGNMNIP 

       430        440        450        460        470        480 
QVAMNRSKDS SQVDGSGFSA PNAYPYYMHG VMNQVMMQSA AMMPQYGHQI PHCQPNHPNG 

       490        500        510        520        530        540 
MTGYPYYHHP MNTSLQHSQM SLQNGQMSMV HHSWSPAGNP PSNEVRVNKL DRREEALLKF 

       550        560        570        580        590        600 
RRKRNQRCFD KKIRYVNRKR LAERRPRVKG QFVRKMNGVN VDLNGQPDSA DYDDEEEEEE 

       610 
EEEEENRDSS PQDDALGT

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Genes encoding pseudo-response regulators: insight into His-to-Asp phosphorelay and circadian rhythm in Arabidopsis thaliana." Makino S., Kiba T., Imamura A., Hanaki N., Nakamura A., Suzuki T., Taniguchi M., Ueguchi C., Sugiyama T., Mizuno T. Plant Cell Physiol. 41:791-803(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], CHARACTERIZATION, GENE FAMILY. Strain: cv. Columbia.
[2]	"Cloning of the Arabidopsis clock gene TOC1, an autoregulatory response regulator homolog." Strayer C., Oyama T., Schultz T.F., Raman R., Somers D.E., Mas P., Panda S., Kreps J.A., Kay S.A. Science 289:768-771(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], MUTAGENESIS OF ALA-562. Strain: cv. Columbia.
[3]	"Interactions of the developmental regulator ABI3 with proteins identified from developing Arabidopsis seeds." Kurup S., Jones H.D., Holdsworth M.J. Plant J. 21:143-155(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, INTERACTION WITH ABI3. Strain: cv. Landsberg erecta.
[4]	"Structural analysis of Arabidopsis thaliana chromosome 5. IV. Sequence features of the regions of 1,456,315 bp covered by nineteen physically assigned P1 and TAC clones." Sato S., Kaneko T., Kotani H., Nakamura Y., Asamizu E., Miyajima N., Tabata S. DNA Res. 5:41-54(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[5]	The Arabidopsis Information Resource (TAIR) Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: cv. Columbia.
[6]	"Empirical analysis of transcriptional activity in the Arabidopsis genome." Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. Ecker J.R. Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia.
[7]	"Circadian waves of expression of the APRR1/TOC1 family of pseudo-response regulators in Arabidopsis thaliana: insight into the plant circadian clock." Matsushika A., Makino S., Kojima M., Mizuno T. Plant Cell Physiol. 41:1002-1012(2000) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[8]	"Reciprocal regulation between TOC1 and LHY/CCA1 within the Arabidopsis circadian clock." Alabadi D., Oyama T., Yanovsky M.J., Harmon F.G., Mas P., Kay S.A. Science 293:880-883(2001) [PubMed] [Europe PMC] [Abstract] Cited for: INDUCTION.
[9]	"The APRR1/TOC1 quintet implicated in circadian rhythms of Arabidopsis thaliana: I. Characterization with APRR1-overexpressing plants." Makino S., Matsushika A., Kojima M., Yamashino T., Mizuno T. Plant Cell Physiol. 43:58-69(2002) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH PIF1.
[10]	"A link between circadian-controlled bHLH factors and the APRR1/TOC1 quintet in Arabidopsis thaliana." Yamashino T., Matsushika A., Fujimori T., Sato S., Kato T., Tabata S., Mizuno T. Plant Cell Physiol. 44:619-629(2003) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH PIF1; PIL2; PIF3; PIF4; PIL5 AND PIL6.
[11]	"Identification of ASK and clock-associated proteins as molecular partners of LKP2 (LOV kelch protein 2) in Arabidopsis." Yasuhara M., Mitsui S., Hirano H., Takanabe R., Tokioka Y., Ihara N., Komatsu A., Seki M., Shinozaki K., Kiyosue T. J. Exp. Bot. 55:2015-2027(2004) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH ADO1 AND ADO2.
[12]	"Forward genetic analysis of the circadian clock separates the multiple functions of ZEITLUPE." Kevei E., Gyula P., Hall A., Kozma-Bognar L., Kim W.Y., Eriksson M.E., Toth R., Hanano S., Feher B., Southern M.M., Bastow R.M., Viczian A., Hibberd V., Davis S.J., Somers D.E., Nagy F., Millar A.J. Plant Physiol. 140:933-945(2006) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH ADO1.
[13]	"PRR3 Is a vascular regulator of TOC1 stability in the Arabidopsis circadian clock." Para A., Farre E.M., Imaizumi T., Pruneda-Paz J.L., Harmon F.G., Kay S.A. Plant Cell 19:3462-3473(2007) [PubMed] [Europe PMC] [Abstract] Cited for: TISSUE SPECIFICITY, INTERACTION WITH APRR3.
[14]	"Post-translational regulation of the Arabidopsis circadian clock through selective proteolysis and phosphorylation of pseudo-response regulator proteins." Fujiwara S., Wang L., Han L., Suh S.-S., Salome P.A., McClung C.R., Somers D.E. J. Biol. Chem. 283:23073-23083(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION, INDUCTION, SUBCELLULAR LOCATION, INTERACTION WITH ADO1 AND APRR3.
[15]	"CUL1 regulates TOC1 protein stability in the Arabidopsis circadian clock." Harmon F., Imaizumi T., Gray W.M. Plant J. 55:568-579(2008) [PubMed] [Europe PMC] [Abstract] Cited for: ENZYME REGULATION.
[16]	"A functional genomics approach reveals CHE as a component of the Arabidopsis circadian clock." Pruneda-Paz J.L., Breton G., Para A., Kay S.A. Science 323:1481-1485(2009) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INTERACTION WITH TCP21.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AB041530 mRNA. Translation: BAA94547.1. AF272039 mRNA. Translation: AAF86252.1. AJ251086 mRNA. Translation: CAB75508.1. AB010073 Genomic DNA. Translation: BAB08493.1. CP002688 Genomic DNA. Translation: AED97460.1. AY094393 mRNA. Translation: AAM19772.1. BT005816 mRNA. Translation: AAO64751.1.
IPI	IPI00517214.
PIR	T52075. T52076.
RefSeq	NP_200946.1. NM_125531.3.
UniGene	At.21919.
3D structure databases
ProteinModelPortal	Q9LKL2.
SMR	Q9LKL2. Positions 20-131.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9LKL2. 17 interactions.
STRING	3702.AT5G61380.1-P.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT5G61380.1; AT5G61380.1; AT5G61380.
GeneID	836259.
KEGG	ath:AT5G61380.
Organism-specific databases
GeneFarm	4313. 437.
TAIR	At5g61380.
Phylogenomic databases
eggNOG	NOG242953.
HOGENOM	HOG000034017.
InParanoid	Q9LKL2.
KO	K12127.
OMA	IPIIMMS.
PhylomeDB	Q9LKL2.
ProtClustDB	CLSN2686914.
Gene expression databases
Genevestigator	Q9LKL2.
GermOnline	AT5G61380. Arabidopsis thaliana.
Family and domain databases
InterPro	IPR010402. CCT_domain. IPR011006. CheY-like_superfamily. IPR001789. Sig_transdc_resp-reg_receiver. [Graphical view]
Pfam	PF06203. CCT. 1 hit. PF00072. Response_reg. 1 hit. [Graphical view]
SMART	SM00448. REC. 1 hit. [Graphical view]
SUPFAM	SSF52172. CheY_like. 1 hit.
PROSITE	PS51017. CCT. 1 hit. PS50110. RESPONSE_REGULATORY. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

APRR1_ARATH

Accession

Primary (citable) accession number: Q9LKL2
Secondary accession number(s): Q9M4B7

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 27, 2004
Last sequence update:	October 1, 2000
Last modified:	May 1, 2013
This is version 102 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program

Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Entry information

Relevant documents