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Title :   TRUNCATED FORM OF CASEIN KINASE II BETA SUBUNIT (2-182) FROM HOMO SAPIENS

Authors :   L. Chantalat, D. Leroy, O. Filhol, A. Nueda, M. J. Benitez, E. Chambaz, C. Cochet, O. Dideberg

Date :   07 Apr 99 (Deposition) - 19 Apr 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.74

Chains :   Asym./Biol. Unit : A,B

Keywords :   Casein Kinase Beta Subunit (1-182), Ser/Thr Protein Kinase, Zn Finger, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. Chantalat, D. Leroy, O. Filhol, A. Nueda, M. J. Benitez, E. M. Chambaz, C. Cochet, O. Dideberg
Crystal Structure Of The Human Protein Kinase Ck2 Regulatory Subunit Reveals Its Zinc Finger-Mediated Dimerization.
Embo J. V. 18 2930 1999
PubMed-ID: 10357806 | Reference-DOI: 10.1093/EMBOJ/18.11.2930
(for further references see the PDB file header)

Molecule 1 - CASEIN KINASE II
	Chains	:	A, B
	EC Number	:	2.7.1.37
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	BETA SUBUNIT (RESIDUES 1-182)
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Other Details	:	TRUNCATED, CONTAINS RESIDUES 1-182

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 19)

No.	Name	Count	Type	Full Name
1	MG	1	Ligand/Ion	MAGNESIUM ION
2	MSE	16	Mod. Amino Acid	SELENOMETHIONINE
3	ZN	2	Ligand/Ion	ZINC ION

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:109 , CYS A:114 , CYS A:137 , CYS A:140	BINDING SITE FOR RESIDUE ZN A 216
2	AC2	SOFTWARE	CYS B:109 , CYS B:114 , CYS B:137 , CYS B:140	BINDING SITE FOR RESIDUE ZN B 216
3	AC3	SOFTWARE	ASP A:28 , HOH A:246 , HOH A:249 , HOH A:258 , HOH A:260 , HOH A:278	BINDING SITE FOR RESIDUE MG A 217
4	ZF1	AUTHOR	CYS A:109 , CYS A:114 , CYS A:137 , CYS A:140	ZINC FINGER MOTIF CHAIN A
5	ZF2	AUTHOR	CYS B:109 , CYS B:114 , CYS B:137 , CYS B:140	ZINC FINGER MOTIF CHAIN B

(no "SS Bond" information available for 1QF8)

(no "Cis Peptide Bond" information available for 1QF8)

(no "SAP(SNP)/Variant" information available for 1QF8)

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CK2_BETA	PS01101	Casein kinase II regulatory subunit signature.	CSK2B_HUMAN	109-140	2	A:109-140 B:109-140

Asymmetric/Biological Unit (5, 10)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.12u	ENST00000400110	12u	ENSE00001723915	HSCHR6_MHC_QBL:31624378-31624510	133	CSK2B_HUMAN	-	0	0	-	-
1.13	ENST00000400110	13	ENSE00002150158	HSCHR6_MHC_QBL:31624844-31624926	83	CSK2B_HUMAN	1-24	24	2	A:7-24 B:6-24	18 19
1.15e	ENST00000400110	15e	ENSE00001622533	HSCHR6_MHC_QBL:31625891-31625993	103	CSK2B_HUMAN	25-59	35	2	A:25-59 B:25-58	35 34
1.15j	ENST00000400110	15j	ENSE00001756289	HSCHR6_MHC_QBL:31626562-31626677	116	CSK2B_HUMAN	59-97	39	2	A:59-97 (gaps) B:67-97	39 31
1.15p	ENST00000400110	15p	ENSE00002150315	HSCHR6_MHC_QBL:31627120-31627195	76	CSK2B_HUMAN	98-123	26	2	A:98-123 B:98-123	26 26
1.15r	ENST00000400110	15r	ENSE00001673157	HSCHR6_MHC_QBL:31627342-31627531	190	CSK2B_HUMAN	123-186	64	2	A:123-179 B:123-176	57 54
1.15t	ENST00000400110	15t	ENSE00001798282	HSCHR6_MHC_QBL:31627859-31628093	235	CSK2B_HUMAN	186-215	30	0	-	-

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:PROTEIN  Length:167
 aligned with CSK2B_HUMAN | P67870 from UniProtKB/Swiss-Prot  Length:215

    Alignment length:173
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176   
          CSK2B_HUMAN     7 VSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELEDNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLPIGLSDIPGEAMVKLYCPKCMDVYTPKSSRHHHTDGAYFGTGFPHMLFMVHPEYRPKRP 179
               SCOP domains d1qf8a_ A: Casein kinase II beta subunit                                                                                                                                      SCOP domains
               CATH domains 1qf8A01 A:7-107 protein kinase ck2 holoenzyme, chain       C, domain 1                               1qf8A02 A:108-179  [code=2.20.25.20, no name defined]                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhh...........hhhhh.hhhh..hhh....hhhhhhhh......------.hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.........hhh...................eeee....eeee...hhh....hhh.....hhhh....hhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------CK2_BETA  PDB: A:109-140        --------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.13         Exon 1.15e  PDB: A:25-59           --------------------------------------Exon 1.15p  PDB: A:98-123 -------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------Exon 1.15j  PDB: A:59-97 (gaps)        -------------------------Exon 1.15r  PDB: A:123-179 UniProt: 123-186 [INCOMPLETE]  Transcript 1 (2)
                 1qf8 A   7 VSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDmILDLEPD------PNQSDLIEQAAEmLYGLIHARYILTNRGIAQmLEKYQQGDFGYCPRVYCENQPmLPIGLSDIPGEAmVKLYCPKCmDVYTPKSSRHHHTDGAYFGTGFPHmLFmVHPEYRPKRP 179
                                    16        26        36        46     |  56  |     66        76 |      86        96|      106       116  |    126     | 136    |  146       156       166  |    176   
                                                                        52-MSE 59     66          78-MSE             97-MSE               119-MSE      132-MSE  141-MSE                  166-MSE         
                                                                                                                                                                                            169-MSE

Chain B from PDB  Type:PROTEIN  Length:163
 aligned with CSK2B_HUMAN | P67870 from UniProtKB/Swiss-Prot  Length:215

    Alignment length:171
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175 
          CSK2B_HUMAN     6 EVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELEDNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLPIGLSDIPGEAMVKLYCPKCMDVYTPKSSRHHHTDGAYFGTGFPHMLFMVHPEYRP 176
               SCOP domains d1qf8b_ B: Casein kinase II beta subunit                                                                                                                                    SCOP domains
               CATH domains -1qf8B01 B:7-107 protein kinase ck2 holoenzyme, chain         C, domain 1                             1qf8B02 B:108-167  [code=2.20.25.20, no name defined]       --------- CATH domains
           Pfam domains (1) --CK_II_beta-1qf8B01 B:8-176                                                                                                                                                Pfam domains (1)
           Pfam domains (2) --CK_II_beta-1qf8B02 B:8-176                                                                                                                                                Pfam domains (2)
         Sec.struct. author ...hhhhhh............hhhhh.hhhh..hhh....hhhhhhhh.....--------.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh.........hhh...................eeee....eeee...hhh....hhh.....hhhh....hhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------CK2_BETA  PDB: B:109-140        ------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.13          Exon 1.15e  PDB: B:25-58           --------------------------------------Exon 1.15p  PDB: B:98-123 ----------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------Exon 1.15j  PDB: B:67-97 UniProt: 59-97-------------------------Exon 1.15r  PDB: B:123-176 UniProt: 123-186            Transcript 1 (2)
                 1qf8 B   6 EVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDmILDLEP--------NQSDLIEQAAEmLYGLIHARYILTNRGIAQmLEKYQQGDFGYCPRVYCENQPmLPIGLSDIPGEAmVKLYCPKCmDVYTPKSSRHHHTDGAYFGTGFPHmLFmVHPEYRP 176
                                    15        25        35        45      | 55  |      - |      75  |     85        95 |     105       115   |   125      |135     | 145       155       165|  |   175 
                                                                         52-MSE58       67         78-MSE             97-MSE               119-MSE      132-MSE  141-MSE                  166-MSE      
                                                                                                                                                                                             169-MSE

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric/Biological Unit

Classes(

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Folds(

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Superfamilies( (-)

)

Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: Small proteins (3458)

Fold: Rubredoxin-like (572)

Superfamily: Casein kinase II beta subunit (7)

Family: Casein kinase II beta subunit (7)

Protein domain: Casein kinase II beta subunit (7)

Human (Homo sapiens) [TaxId: 9606] (5)

1a	d1qf8a_	A:
1b	d1qf8b_	B:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: protein kinase ck2 holoenzyme, chain C, domain 1 (3)

Homologous Superfamily: protein kinase ck2 holoenzyme, chain C, domain 1 (3)

Human (Homo sapiens) (2)

1a	1qf8A01	A:7-107
1b	1qf8B01	B:7-107

Class: Mainly Beta (13760)

Architecture: Single Sheet (341)

Topology: N-terminal domain of TfIIb (166)

Homologous Superfamily: [code=2.20.25.20, no name defined] (3)

Human (Homo sapiens) (2)

2a	1qf8A02	A:108-179
2b	1qf8B02	B:108-167

Asymmetric/Biological Unit

Clans(

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Families(

)

Organisms( (-)

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Clan: no clan defined [family: CK_II_beta] (4)

Family: CK_II_beta (4)

Homo sapiens (Human) (2)

1a	CK_II_beta-1qf8B01	B:8-176
1b	CK_II_beta-1qf8B02	B:8-176

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (CSK2B_HUMAN | P67870)

molecular function
	GO:0003682	chromatin binding	Interacting selectively and non-covalently with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0019904	protein domain specific binding	Interacting selectively and non-covalently with a specific domain of a protein.
	GO:0019887	protein kinase regulator activity	Modulates the activity of a protein kinase, an enzyme which phosphorylates a protein.
	GO:0004674	protein serine/threonine kinase activity	Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
	GO:0005102	receptor binding	Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
	GO:0008134	transcription factor binding	Interacting selectively and non-covalently with a transcription factor, any protein required to initiate or regulate transcription.
biological process
	GO:0016055	Wnt signaling pathway	The series of molecular signals initiated by binding of a Wnt protein to a frizzled family receptor on the surface of the target cell and ending with a change in cell state.
	GO:0033211	adiponectin-activated signaling pathway	A series of molecular signals initiated by the binding of adiponectin to a receptor on the surface of a cell, and ending with regulation of a downstream cellular process, e.g. transcription.
	GO:0043623	cellular protein complex assembly	The aggregation, arrangement and bonding together of a set of components to form a protein complex, occurring at the level of an individual cell.
	GO:0061154	endothelial tube morphogenesis	The process in which the anatomical structures of a tube are generated and organized from an endothelium. Endothelium refers to the layer of cells lining blood vessels, lymphatics, the heart, and serous cavities, and is derived from bone marrow or mesoderm. Corneal endothelium is a special case, derived from neural crest cells.
	GO:0043537	negative regulation of blood vessel endothelial cell migration	Any process that stops, prevents, or reduces the frequency, rate or extent of the migration of the endothelial cells of blood vessels.
	GO:0008285	negative regulation of cell proliferation	Any process that stops, prevents or reduces the rate or extent of cell proliferation.
	GO:0032927	positive regulation of activin receptor signaling pathway	Any process that activates or increases the frequency, rate or extent of the activity of any activin receptor signaling pathway.
	GO:0010862	positive regulation of pathway-restricted SMAD protein phosphorylation	Any process that increases the rate, frequency or extent of pathway-restricted SMAD protein phosphorylation. Pathway-restricted SMAD proteins and common-partner SMAD proteins are involved in the transforming growth factor beta receptor signaling pathways.
	GO:0006457	protein folding	The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
	GO:0006468	protein phosphorylation	The process of introducing a phosphate group on to a protein.
	GO:0051101	regulation of DNA binding	Any process that modulates the frequency, rate or extent of DNA binding. DNA binding is any process in which a gene product interacts selectively with DNA (deoxyribonucleic acid).
	GO:0045859	regulation of protein kinase activity	Any process that modulates the frequency, rate or extent of protein kinase activity.
	GO:1901796	regulation of signal transduction by p53 class mediator	Any process that modulates the frequency, rate or extent of signal transduction by p53 class mediator.
	GO:0007165	signal transduction	The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
cellular component
	GO:0031519	PcG protein complex	A chromatin-associated multiprotein complex containing Polycomb Group proteins. In Drosophila, Polycomb group proteins are involved in the long-term maintenance of gene repression, and PcG protein complexes associate with Polycomb group response elements (PREs) in target genes to regulate higher-order chromatin structure.
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
	GO:0005956	protein kinase CK2 complex	A protein complex that possesses protein serine/threonine kinase activity, and contains two catalytic alpha subunits and two regulatory beta subunits. Protein kinase CK2 complexes are found in nearly every subcellular compartment, and can phosphorylate many protein substrates in addition to casein.

Asymmetric/Biological Unit
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(no "Related Entries Specified in the PDB File" available for 1QF8)

Description

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Ligands, Modified Residues, Ions (3, 19)

Sites (5, 5)

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