Reviewed, UniProtKB/Swiss-Prot Q06486 (KC1D_RAT)

Names and origin

Protein names

Recommended name:
    Casein kinase I isoform delta
      Short name=CKI-delta
    EC=2.7.11.1

Gene names

Name:

Csnk1d

Organism

Rattus norvegicus (Rat)

Taxonomic identifier

10116 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus

Protein attributes

Sequence length	415 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates. It can phosphorylate a large number of proteins. Participates in Wnt signaling. Central component of the circadian clock. May act as a negative regulator of circadian rhythmicity by phosphorylating PER1 and PER2. Retains PER1 in the cytoplasm By similarity.
Catalytic activity	ATP + a protein = ADP + a phosphoprotein.
Enzyme regulation	Exhibits substrate-dependent heparin activation.
Subunit structure	Monomer. Component of the circadian core oscillator, which includes the CRY proteins, CLOCK, or NPAS2, BMAL1 or BMAL2, CSNK1D and/or CSNK1E, TIMELESS and the PER proteins. Interacts directly with PER1 and PER2 which may lead to their degradation.
Subcellular location	CytoplasmBy similarity.
Tissue specificity	Expressed in most tissues, including heart, brain, testis, kidney, spleen and lung.
Domain	The autoinhibitory domain is involved in regulating enzyme activity through autophosphorylation and possibly, through heparin binding.
Post-translational modification	Autophosphorylated on serine and threonine residues.
Sequence similarities	Belongs to the protein kinase superfamily. CK1 Ser/Thr protein kinase family. Casein kinase I subfamily. Contains 1 protein kinase domain.

Ontologies

Keywords
Biological process	Wnt signaling pathway
Cellular component	Cytoplasm
Coding sequence diversity	Alternative splicing
Ligand	ATP-binding Nucleotide-binding
Molecular function	Kinase Serine/threonine-protein kinase Transferase
PTM	Phosphoprotein
Technical term	3D-structure Direct protein sequencing
Gene Ontology (GO)
Biological process	Wnt receptor signaling pathway Inferred from electronic annotation. Source: UniProtKB-KW protein amino acid phosphorylation Inferred from electronic annotation. Source: InterPro
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	ATP binding Inferred from electronic annotation. Source: InterPro protein serine/threonine kinase activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q06486-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Isoform 2 (identifier: Q06486-2)

The sequence of this isoform differs from the canonical sequence as follows:
     400-415: IPGRVASSGLQSVVHR → RSRDMASLRLHAARQGARCRPQRPRRTTY

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 415

415

Casein kinase I isoform delta

PRO_0000192836

Regions

Domain

9 – 277

269

Protein kinase

Nucleotide binding

15 – 23

9

ATP By similarity

Region

317 – 342

26

Autoinhibitory

Sites

Active site

128

1

Proton acceptor

Binding site

38

1

ATP By similarity

Amino acid modifications

Modified residue

331

1

Phosphoserine By similarity

Modified residue

347

1

Phosphothreonine By similarity

Modified residue

349

1

Phosphothreonine By similarity

Modified residue

350

1

Phosphoserine By similarity

Modified residue

382

1

Phosphoserine By similarity

Modified residue

383

1

Phosphoserine By similarity

Modified residue

384

1

Phosphoserine By similarity

Natural variations

Alternative sequence

400 – 415

16

IPGRV…SVVHR → RSRDMASLRLHAARQGARCR PQRPRRTTY in isoform 2.

VSP_010255

Secondary structure

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415

Helix Strand Turn

Details...

Turn

6 – 8

3

Beta strand

9 – 17

9

Beta strand

19 – 28

10

Turn

29 – 31

3

Beta strand

34 – 42

9

Helix

49 – 58

10

Beta strand

68 – 74

7

Beta strand

77 – 83

7

Helix

89 – 95

7

Turn

96 – 98

3

Helix

102 – 121

20

Helix

131 – 133

3

Beta strand

134 – 136

3

Helix

139 – 141

3

Beta strand

145 – 147

3

Turn

159 – 161

3

Beta strand

177 – 179

3

Helix

182 – 185

4

Helix

192 – 208

17

Helix

225 – 234

10

Helix

237 – 240

4

Turn

241 – 243

3

Helix

246 – 257

12

Helix

266 – 279

14

Helix

289 – 292

4

Helix

293 – 295

3

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified May 10, 2004. Version 2. Checksum: B97F04AF9EB466D2	FASTA	415	47,316
	10 20 30 40 50 60 MELRVGNRYR LGRKIGSGSF GDIYLGTDIA AGEEVAIKLE CVKTKHPQLH IESKIYKMMQ 70 80 90 100 110 120 GGVGIPTIRW CGAEGDYNVM VMELLGPSLE DLFNFCSRKF SLKTVLLLAD QMISRIEYIH 130 140 150 160 170 180 SKNFIHRDVK PDNFLMGLGK KGNLVYIIDF GLAKKYRDAR THQHIPYREN KNLTGTARYA 190 200 210 220 230 240 SINTHLGIEQ SRRDDLESLG YVLMYFNLGS LPWQGLKAAT KRQKYERISE KKMSTPIEVL 250 260 270 280 290 300 CKGYPSEFAT YLNFCRSLRF DDKPDYSYLR QLFRNLFHRQ GFSYDYVFDW NMLKFGASRA 310 320 330 340 350 360 ADDAERERRD REERLRHSRN PATRGLPSTA SGRLRGTQEV APPTPLTPTS HTANTSPRPV 370 380 390 400 410 SGMERERKVS MRLHRGAPVN VSSSDLTGRQ DTSRMSTSQI PGRVASSGLQ SVVHR
	Isoform 2 [UniParc]. Checksum: E6B11915C1746568		428	49,121
	10 20 30 40 50 60 MELRVGNRYR LGRKIGSGSF GDIYLGTDIA AGEEVAIKLE CVKTKHPQLH IESKIYKMMQ 70 80 90 100 110 120 GGVGIPTIRW CGAEGDYNVM VMELLGPSLE DLFNFCSRKF SLKTVLLLAD QMISRIEYIH 130 140 150 160 170 180 SKNFIHRDVK PDNFLMGLGK KGNLVYIIDF GLAKKYRDAR THQHIPYREN KNLTGTARYA 190 200 210 220 230 240 SINTHLGIEQ SRRDDLESLG YVLMYFNLGS LPWQGLKAAT KRQKYERISE KKMSTPIEVL 250 260 270 280 290 300 CKGYPSEFAT YLNFCRSLRF DDKPDYSYLR QLFRNLFHRQ GFSYDYVFDW NMLKFGASRA 310 320 330 340 350 360 ADDAERERRD REERLRHSRN PATRGLPSTA SGRLRGTQEV APPTPLTPTS HTANTSPRPV 370 380 390 400 410 420 SGMERERKVS MRLHRGAPVN VSSSDLTGRQ DTSRMSTSQR SRDMASLRLH AARQGARCRP QRPRRTTY

References

[1]	"Molecular cloning, expression, and characterization of a 49-kilodalton casein kinase I isoform from rat testis." Graves P.R., Haas D.W., Hagedorn C.H., Depaoli-Roach A.A., Roach P.J. J. Biol. Chem. 268:6394-6401(1993) [PubMed: 8454611] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), PROTEIN SEQUENCE OF 1-6. Tissue: Testis.
[2]	"Casein kinase 1 delta rat." Takano A., Nagai K. Submitted (JUN-2001) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
[3]	"Role of COOH-terminal phosphorylation in the regulation of casein kinase I delta." Graves P.R., Roach P.J. J. Biol. Chem. 270:21689-21694(1995) [PubMed: 7665585] [Abstract] Cited for: AUTOPHOSPHORYLATION, AUTOINHIBITORY DOMAIN.
[4]	"Human casein kinase Idelta phosphorylation of human circadian clock proteins period 1 and 2." Camacho F., Cilio M., Guo Y., Virshup D.M., Patel K., Khorkova O., Styren S., Morse B., Yao Z., Keesler G.A. FEBS Lett. 489:159-165(2001) [PubMed: 11165242] [Abstract] Cited for: TISSUE SPECIFICITY.
[5]	"Three-dimensional structure of mammalian casein kinase I: molecular basis for phosphate recognition." Longenecker K.L., Roach P.J., Hurley T.D. J. Mol. Biol. 257:618-631(1996) [PubMed: 8648628] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS) OF 1-317.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

L07578 mRNA. Translation: AAA40934.1.
AB063114 mRNA. Translation: BAB60852.1.

PIR

A46002.

RefSeq

NP_620691.2.

UniGene

Rn.8046

3D structure databases

PDBMSD

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1CKI	X-ray	2.30	A/B	1-317	[»]
1CKJ	X-ray	2.46	A/B	1-317	[»]

ModBase

Search...

PTM databases

PhosphoSite

Q06486.

Genome annotation databases

Ensembl

ENSRNOG00000036676. Rattus norvegicus. [Contig view]

GeneID

64462.

KEGG

rno:64462.

Organism-specific databases

RGD

71031. Csnk1d.

Phylogenomic databases

HOVERGEN

Q06486.

Gene expression databases

ArrayExpress

Q06486.

GermOnline

ENSRNOG00000036676. Rattus norvegicus.

Family and domain databases

InterPro

IPR000719. Prot_kinase_core.
IPR017441. Protein_kinase_ATP_bd_CS.
IPR017442. Se/Thr_pkinase-rel.
IPR008271. Ser_thr_pkin_AS.
[Graphical view]

Pfam

PF00069. Pkinase. 1 hit.
[Graphical view]

ProDom

PD000001. Prot_kinase. 1 hit.
[Graphical view] [Entries sharing at least one domain]

PROSITE

PS00107. PROTEIN_KINASE_ATP. 1 hit.
PS50011. PROTEIN_KINASE_DOM. 1 hit.
PS00108. PROTEIN_KINASE_ST. 1 hit.
[Graphical view]

ProtoNet

Search...

Other Resources

LinkHub

Q06486.

NextBio

613212.

Entry information

Entry name

KC1D_RAT

Accession

Primary (citable) accession number: Q06486
Secondary accession number(s): Q99KK4

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 1, 1994
Last sequence update:	May 10, 2004
Last modified:	November 25, 2008
This is version 80 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)