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(-) Description

Title :  CRYSTAL STRUCTURE OF A HETEROTETRAMERIC CK2 HOLOENZYME COMPLEX CARRYING THE ANDANTE-MUTATION IN CK2BETA AND CONSISTENT WITH PROPOSED MODELS OF AUTOINHIBITION AND TRANS-AUTOPHOSPHORYLATION
 
Authors :  A. Schnitzler, O. -G. Issinger, K. Niefind
Date :  04 Nov 13  (Deposition) - 12 Mar 14  (Release) - 16 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.30
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Eukaryotic Protein Kinase Fold, Phosphotransferase (Kinase), Phosphorylation, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Schnitzler, B. B. Olsen, O. -G. Issinger, K. Niefind
The Protein Kinase Ck2(Andante) Holoenzyme Structure Supports Proposed Models Of Autoregulation And Trans-Autophosphorylation
J. Mol. Biol. V. 426 1871 2014
PubMed-ID: 24594356  |  Reference-DOI: 10.1016/J.JMB.2014.02.018
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CASEIN KINASE II SUBUNIT ALPHA
    Chains: A, B
    EC Number: 2.7.11.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PT7-7
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1-335
    Gene: CSNK2A1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PROTEIN KINASE CK2 CATALYTIC SUBUNIT, CK2ALPHA, CK II ALPHA
 
Molecule 2 - CASEIN KINASE II SUBUNIT BETA
    Chains: C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PT7-7
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CSNK2B
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PROTEIN KINASE CK2 NON-CATALYTIC SUBUNIT, CK2BETA, CK II BETA, PHOSVITIN, PROTEIN G5A

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 9)

Asymmetric/Biological Unit (4, 9)
No.NameCountTypeFull Name
1ACP2Ligand/IonPHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER
2GOL1Ligand/IonGLYCEROL
3MG4Ligand/IonMAGNESIUM ION
4ZN2Ligand/IonZINC ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:161 , ASP A:175 , MG A:402 , ACP A:403 , HOH A:502BINDING SITE FOR RESIDUE MG A 401
2AC2SOFTWAREASP A:175 , MG A:401 , ACP A:403BINDING SITE FOR RESIDUE MG A 402
3AC3SOFTWARELEU A:45 , SER A:51 , VAL A:53 , VAL A:66 , LYS A:68 , GLU A:114 , VAL A:116 , ASN A:161 , MET A:163 , ASP A:175 , MG A:401 , MG A:402 , HOH A:502BINDING SITE FOR RESIDUE ACP A 403
4AC4SOFTWAREASP B:156 , ASP B:175 , MG B:402 , ACP B:404 , HOH B:505BINDING SITE FOR RESIDUE MG B 401
5AC5SOFTWAREASN B:161 , ASP B:175 , MG B:401 , ACP B:404 , HOH B:502BINDING SITE FOR RESIDUE MG B 402
6AC6SOFTWAREASP A:299 , ASP A:302BINDING SITE FOR RESIDUE GOL B 403
7AC7SOFTWARELEU B:45 , SER B:51 , VAL B:53 , VAL B:66 , LYS B:68 , ILE B:95 , GLU B:114 , VAL B:116 , ASN B:161 , MET B:163 , ILE B:174 , ASP B:175 , MG B:401 , MG B:402 , HOH B:502 , HOH B:505BINDING SITE FOR RESIDUE ACP B 404
8AC8SOFTWARECYS C:109 , CYS C:114 , CYS C:137 , CYS C:140BINDING SITE FOR RESIDUE ZN C 301
9AC9SOFTWARECYS D:109 , CYS D:114 , CYS D:137 , CYS D:140BINDING SITE FOR RESIDUE ZN D 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4NH1)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:230 -Pro A:231
2Glu B:230 -Pro B:231

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NH1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NH1)

(-) Exons   (0, 0)

(no "Exon" information available for 4NH1)

(-) Sequences/Alignments

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
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:330
                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .................hhhhhh.........hhh.eeeeeeeee...eeeeeeee.....eeeeeee.....hhhhhhhhhhhhh........eeeeee......eeeeee..............hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eeee....eeee......ee............hhhhhhhhhhh......hhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh.....hhhhhh........hhhhhhhhhh....hhhhh.hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4nh1 A   3 GPVPSRARVYTDVNTHRPREYWDYESHVVEWGNQDDYQLVRKLGRGKYSEVFEAINITNNEKVVVKILKPVKKKKIKREIKILENLRGGPNIITLADIVKDPVSRTPALVFEHVNNTDFKQLYQTLTDYDIRFYMYEILKALDYCHSMGIMHRDVKPHNVMIDHEHRKLRLIDWGLAEFYHPGQEYNVRVASRYFKGPELLVDYQMYDYSLDMWSLGCMLASMIFRKEPFFHGHDNYDQLVRIAKVLGTEDLYDYIDKYNIELDPRFNDILGRHSRKRWERFVHSENQHLVSPEALDFLDKLLRYDHQSRLTAREAMEHPYFYTVVKDQA 332
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332


Chain B from PDB  Type:PROTEIN  Length:332
                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhhh.........hhh.eeeeeeeee...eeeeeeee.....eeeeeee.....hhhhhhhhhhhhh........eeeeee......eeeeee..............hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eeee....eeee......ee............hhhhhhhhhhh......hhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh.....hhhhhh........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nh1 B   2 SGPVPSRARVYTDVNTHRPREYWDYESHVVEWGNQDDYQLVRKLGRGKYSEVFEAINITNNEKVVVKILKPVKKKKIKREIKILENLRGGPNIITLADIVKDPVSRTPALVFEHVNNTDFKQLYQTLTDYDIRFYMYEILKALDYCHSMGIMHRDVKPHNVMIDHEHRKLRLIDWGLAEFYHPGQEYNVRVASRYFKGPELLVDYQMYDYSLDMWSLGCMLASMIFRKEPFFHGHDNYDQLVRIAKVLGTEDLYDYIDKYNIELDPRFNDILGRHSRKRWERFVHSENQHLVSPEALDFLDKLLRYDHQSRLTAREAMEHPYFYTVVKDQAR 333
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331  


Chain C from PDB  Type:PROTEIN  Length:201
                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhh..........hhhhhhhhhhh........hhhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh......hhhhh....eeee.........eeeee....eee....hhhhhhhhhhh..hhhhhhhhhhhhhh...............ee.hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nh1 C   7 VSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELEDNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLPIGLSDIPGEAMVKLYCPKCMDVYTPKSSRHHHTDGAYFGTGFPHILFMVHPEYRPKRPANQFVPRLYGFKIHPMAYQLQLQAASNF 207
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206 


Chain D from PDB  Type:PROTEIN  Length:201
                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhh..........hhhhhhhhhhh........hhhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh......hhhhh....eeee.........eeeee....eee....hhhhhhhhhhh..hhhhhhhhhhhhhh...............ee.hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nh1 D   7 VSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEPDEELEDNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLPIGLSDIPGEAMVKLYCPKCMDVYTPKSSRHHHTDGAYFGTGFPHILFMVHPEYRPKRPANQFVPRLYGFKIHPMAYQLQLQAASNF 207
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206
   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 '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4NH1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4NH1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4NH1)

(-) Gene Ontology  (56, 68)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CSK21_HUMAN | P68400: 1jwh 1na7 1pjk 2pvr 2zjw 3amy 3at2 3at3 3at4 3axw 3bqc 3c13 3fwq 3h30 3juh 3mb6 3mb7 3nga 3nsz 3owj 3owk 3owl 3pe1 3pe2 3pe4 3q04 3q9w 3q9x 3q9y 3q9z 3qa0 3r0t 3rps 3tax 3u4u 3u87 3u9c 3w8l 3war 3wik 3wil 3wow 4dgl 4fbx 4grb 4gub 4gyw 4gyy 4gz3 4ib5 4kwp 4md7 4md8 4md9 4rll 4ub7 4uba 5b0x 5clp 5cqu 5cqw 5cs6 5csh 5csp 5csv 5ct0 5ctp 5cu0 5cu2 5cu3 5cu4 5cu6 5cvf 5cvg 5cvh 5cx9 5h8b 5h8e 5h8g 5hgv 5m44 5m4c 5m4f 5m4i 5mmf 5mmr 5mo5 5mo6 5mo7 5mo8 5mod 5moe 5moh 5mot 5mov 5mow 5mp8 5mpj 5n1v 5nqc
        CSK2B_HUMAN | P67870: 1ds5 1jwh 1qf8 3eed 4dgl 4md7 4md8 4md9

(-) Related Entries Specified in the PDB File

1jwh 4dgl