dbPAF Protein Information


Tag Content
dbPAF ID dbPAF-0000359
Uniprot Accession O08785; CLOCK_MOUSE;
Genbank Protein ID NP_001276755.1; NP_031741.1; XP_006534807.1; XP_011247702.1;
Genbank Nucleotide ID NM_001289826.1; NM_007715.6; XM_006534744.2; XM_011249400.1;
Protein Name Circadian locomoter output cycles protein kaput
Protein Synonyms/Alias
Gene Name Clock
Gene Synonyms/Alias
Organism Mus musculus(Mouse)
NCBI Taxa ID 10090
Functional Description
(View all)
Transcriptional activator which forms a core component of the circadian clock. The circadian clock, an internal time-keeping system, regulates various physiological processes through the generation of approximately 24 hour circadian rhythms in gene expression, which are translated into rhythms in metabolism and behavior. It is derived from the Latin roots 'circa' (about) and 'diem' (day) and acts as an important regulator of a wide array of physiological functions including metabolism, sleep, body temperature, blood pressure, endocrine, immune, cardiovascular, and renal function. Consists of two major components: the central clock, residing in the suprachiasmatic nucleus (SCN) of the brain, and the peripheral clocks that are present in nearly every tissue and organ system. Both the central and peripheral clocks can be reset by environmental cues, also known as Zeitgebers (German for 'timegivers'). The predominant Zeitgeber for the central clock is light, which is sensed by retina and signals directly to the SCN. The central clock entrains the peripheral clocks through neuronal and hormonal signals, body temperature and feeding-related cues, aligning all clocks with the external light/dark cycle. Circadian rhythms allow an organism to achieve temporal homeostasis with its environment at the molecular level by regulating gene expression to create a peak of protein expression once every 24 hours to control when a particular physiological process is most active with respect to the solar day. Transcription and translation of core clock components (CLOCK, NPAS2, ARNTL/BMAL1, ARNTL2/BMAL2, PER1, PER2, PER3, CRY1 and CRY2) plays a critical role in rhythm generation, whereas delays imposed by post-translational modifications (PTMs) are important for determining the period (tau) of the rhythms (tau refers to the period of a rhythm and is the length, in time, of one complete cycle). A diurnal rhythm is synchronized with the day/night cycle, while the ultradian and infradian rhythms have a period shorter and longer than 24 hours, respectively. Disruptions in the circadian rhythms contribute to the pathology of cardiovascular diseases, cancer, metabolic syndromes and aging. A transcription/translation feedback loop (TTFL) forms the core of the molecular circadian clock mechanism. Transcription factors, CLOCK or NPAS2 and ARNTL/BMAL1 or ARNTL2/BMAL2, form the positive limb of the feedback loop, act in the form of a heterodimer and activate the transcription of core clock genes and clock-controlled genes (involved in key metabolic processes), harboring E-box elements (5'-CACGTG-3') within their promoters. The core clock genes: PER1/2/3 and CRY1/2 which are transcriptional repressors form the negative limb of the feedback loop and interact with the CLOCK|NPAS2-ARNTL/BMAL1|ARNTL2/BMAL2 heterodimer inhibiting its activity and thereby negatively regulating their own expression. This heterodimer also activates nuclear receptors NR1D1/2 and RORA/B/G, which form a second feedback loop and which activate and repress ARNTL/BMAL1 transcription, respectively. CLOCK has an intrinsic acetyltransferase activity, which enables circadian chromatin remodeling by acetylating histones and nonhistone proteins, including its own partner ARNTL/BMAL1. Regulates the circadian expression of ICAM1, VCAM1, CCL2, THPO and MPL and also acts as an enhancer of the transactivation potential of NF-kappaB. Plays an important role in the homeostatic regulation of sleep. The CLOCK-ARNTL/BMAL1 heterodimer regulates the circadian expression of SERPINE1/PAI1, VWF, B3, CCRN4L/NOC, NAMPT, DBP, MYOD1, PPARGC1A, PPARGC1B, SIRT1, GYS2, F7, NGFR, GNRHR, BHLHE40/DEC1, ATF4, MTA1, KLF10 and also genes implicated in glucose and lipid metabolism. Represses glucocorticoid receptor NR3C1/GR-induced transcriptional activity by reducing the association of NR3C1/GR to glucocorticoid response elements (GREs) via the acetylation of multiple lysine residues located in its hinge region. Promotes rhythmic chromatin opening, regulating the DNA accessibility of other transcription factors. May play a role in spermatogenesis; contributes to the chromatoid body assembly and physiology. The CLOCK-ARNTL2/BMAL2 heterodimer activates the transcription of SERPINE1/PAI1 and BHLHE40/DEC1.
Phosphorylation Sites
dbPAF PTMs: 15
PositionPeptidesSourceReferences ( PMIDs )
38KDKAKRVSRNKSEKKdbPTM 3.0;PhosphoSitePlus;UniProt19414601; 16381945; 23193290; 22135298
42KRVSRNKSEKKRRDQdbPTM 3.0;PhosphoSitePlus;UniProt19414601; 16381945; 23193290; 22135298
331CHEHLMQYGKGKSCYPhosphoSitePlus;curated22135298; 25195567
403PETAADKSQDSGSDNcurated25338131
406AADKSQDSGSDNRINPhosphoSitePlus;SysPTM 2.0;curated22135298; 17242355; 19366988; 25338131
408DKSQDSGSDNRINTVdbPTM 3.0;Phospho.ELM 9.0;PhosphoSitePlus;SysPTM 2.0;UniProt;curated17242355; 16381945; 23193290; 22135298; 19366988; 25338131
427ALERFDHSPTPSASSdbPTM 3.0;PhosphoSitePlus;curated19414601; 16381945; 23193290; 22135298; 23684622; 25338131
431FDHSPTPSASSRSSRUniProt19946213
440SSRSSRKSSHTAVSDcurated23684622
441SRSSRKSSHTAVSDPcurated23684622
446KSSHTAVSDPSSTPTPhosphoSitePlus;curated22135298; 23684622
460TKIPTDTSTPPRQHLcurated20469934
461KIPTDTSTPPRQHLPcurated20469934
845LPRHRTDSLTDPSKVPhosphoSitePlus;curated22135298; 25266776; 25338131
847RHRTDSLTDPSKVQPcurated25266776
Sequence
(Fasta)
MVFTVSCSKM SSIVDRDDSS IFDGLVEEDD KDKAKRVSRN KSEKKRRDQF NVLIKELGSM 60
LPGNARKMDK STVLQKSIDF LRKHKETTAQ SDASEIRQDW KPTFLSNEEF TQLMLEALDG 120
FFLAIMTDGS IIYVSESVTS LLEHLPSDLV DQSIFNFIPE GEHSEVYKIL STHLLESDSL 180
TPEYLKSKNQ LEFCCHMLRG TIDPKEPSTY EYVRFIGNFK SLTSVSTSTH NGFEGTIQRT 240
HRPSYEDRVC FVATVRLATP QFIKEMCTVE EPNEEFTSRH SLEWKFLFLD HRAPPIIGYL 300
PFEVLGTSGY DYYHVDDLEN LAKCHEHLMQ YGKGKSCYYR FLTKGQQWIW LQTHYYITYH 360
QWNSRPEFIV CTHTVVSYAE VRAERRRELG IEESLPETAA DKSQDSGSDN RINTVSLKEA 420
LERFDHSPTP SASSRSSRKS SHTAVSDPSS TPTKIPTDTS TPPRQHLPAH EKMTQRRSSF 480
SSQSINSQSV GPSLTQPAMS QAANLPIPQG MSQFQFSAQL GAMQHLKDQL EQRTRMIEAN 540
IHRQQEELRK IQEQLQMVHG QGLQMFLQQS NPGLNFGSVQ LSSGNSNIQQ LTPVNMQGQV 600
VPANQVQSGH ISTGQHMIQQ QTLQSTSTQQ SQQSVMSGHS QQTSLPSQTP STLTAPLYNT 660
MVISQPAAGS MVQIPSSMPQ NSTQSATVTT FTQDRQIRFS QGQQLVTKLV TAPVACGAVM 720
VPSTMLMGQV VTAYPTFATQ QQQAQTLSVT QQQQQQQQQP PQQQQQQQQS SQEQQLPSVQ 780
QPAQAQLGQP PQQFLQTSRL LHGNPSTQLI LSAAFPLQQS TFPPSHHQQH QPQQQQQLPR 840
HRTDSLTDPS KVQPQ 856
Keyword

KW-0002--3D-structure
KW-0010--Activator
KW-0012--Acyltransferase
KW-0025--Alternative splicing
KW-0090--Biological rhythms
KW-0181--Complete proteome
KW-0963--Cytoplasm
KW-0227--DNA damage
KW-0238--DNA-binding
KW-0325--Glycoprotein
KW-1017--Isopeptide bond
KW-0539--Nucleus
KW-0597--Phosphoprotein
KW-1185--Reference proteome
KW-0677--Repeat
KW-0804--Transcription
KW-0805--Transcription regulation
KW-0808--Transferase
KW-0832--Ubl conjugation

Interpro

IPR011598--bHLH_dom
IPR001067--Nuc_translocat
IPR001610--PAC
IPR000014--PAS
IPR013767--PAS_fold

PROSITE

PS50888--BHLH
PS50112--PAS

Pfam

PF00010--HLH
PF00989--PAS

Gene Ontology

GO:0033391--C:chromatoid body
GO:0005694--C:chromosome
GO:0005737--C:cytoplasm
GO:0005829--C:cytosol
GO:0043231--C:intracellular membrane-bounded organelle
GO:0005654--C:nucleoplasm
GO:0005634--C:nucleus
GO:0005667--C:transcription factor complex
GO:0031490--F:chromatin DNA binding
GO:0001047--F:core promoter binding
GO:0001046--F:core promoter sequence-specific DNA binding
GO:0003677--F:DNA binding
GO:0070888--F:E-box binding
GO:0004402--F:histone acetyltransferase activity
GO:0000978--F:RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0043565--F:sequence-specific DNA binding
GO:0000982--F:transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0003700--F:transcription factor activity, sequence-specific DNA binding
GO:0008134--F:transcription factor binding
GO:0001077--F:transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0001190--F:transcriptional activator activity, RNA polymerase II transcription factor binding
GO:0071479--P:cellular response to ionizing radiation
GO:0032922--P:circadian regulation of gene expression
GO:0007623--P:circadian rhythm
GO:0000077--P:DNA damage checkpoint
GO:0016573--P:histone acetylation
GO:2000323--P:negative regulation of glucocorticoid receptor signaling pathway
GO:0045892--P:negative regulation of transcription, DNA-templated
GO:0050729--P:positive regulation of inflammatory response
GO:0051092--P:positive regulation of NF-kappaB transcription factor activity
GO:0045944--P:positive regulation of transcription from RNA polymerase II promoter
GO:0045893--P:positive regulation of transcription, DNA-templated
GO:0043161--P:proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0042634--P:regulation of hair cycle
GO:0050796--P:regulation of insulin secretion
GO:0006355--P:regulation of transcription, DNA-templated
GO:2000074--P:regulation of type B pancreatic cell development
GO:0051775--P:response to redox state
GO:0007283--P:spermatogenesis
GO:0006366--P:transcription from RNA polymerase II promoter