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(-) Description

Title :  CRYSTAL STRUCTURE OF SCCK2 ALPHA IN COMPLEX WITH GMPPNP
 
Authors :  H. Liu
Date :  27 Jun 13  (Deposition) - 05 Mar 14  (Release) - 05 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Protein Kinase, Protein Phosphorylation, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Liu, H. Wang, M. Teng, X. Li
The Multiple Nucleotide-Divalent Cation Binding Modes Of Saccharomyces Cerevisiae Ck2 Alpha Indicate A Possible Co-Substrate Hydrolysis Product (Adp/Gdp) Release Pathway.
Acta Crystallogr. , Sect. D V. 70 501 2014
PubMed-ID: 24531484  |  Reference-DOI: 10.1107/S1399004713027879

(-) 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 Taxid: 562
    Gene: CKA1, YIL035C
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: CK II SUBUNIT ALPHA

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 18)

Asymmetric/Biological Unit (4, 18)
No.NameCountTypeFull Name
1GNP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
2GOL2Ligand/IonGLYCEROL
3MN4Ligand/IonMANGANESE (II) ION
4SO410Ligand/IonSULFATE ION

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:47 , ARG A:48 , GLY A:49 , LYS A:50 , TYR A:51 , SER A:52 , VAL A:54 , VAL A:67 , LYS A:69 , VAL A:155 , ASN A:157 , ASP A:195 , LYS A:197 , HIS A:199 , ASN A:200 , MET A:202 , ILE A:213 , ASP A:214 , MN A:402 , MN A:403 , GOL A:404 , HOH A:503 , HOH A:506 , HOH A:551 , HOH A:576 , HOH A:615 , HOH A:619 , HOH A:624 , HOH A:640 , HOH A:659BINDING SITE FOR RESIDUE GNP A 401
02AC2SOFTWAREASN A:200 , ASP A:214 , GNP A:401 , HOH A:506BINDING SITE FOR RESIDUE MN A 402
03AC3SOFTWAREASP A:214 , GNP A:401 , HOH A:539 , HOH A:551BINDING SITE FOR RESIDUE MN A 403
04AC4SOFTWAREVAL A:46 , ASN A:157 , ASP A:159 , GNP A:401BINDING SITE FOR RESIDUE GOL A 404
05AC5SOFTWAREARG A:81 , ARG A:194 , ASN A:228 , HOH A:530 , HOH A:651 , HOH A:695BINDING SITE FOR RESIDUE SO4 A 405
06AC6SOFTWAREARG A:230 , ARG A:234 , ASN A:277 , HOH A:589 , HOH A:668BINDING SITE FOR RESIDUE SO4 A 406
07AC7SOFTWARELYS A:166 , HOH A:609 , HOH A:710 , ARG B:161BINDING SITE FOR RESIDUE SO4 A 407
08AC8SOFTWAREARG A:316 , PRO A:318 , TRP A:319 , HIS A:320 , ILE A:337BINDING SITE FOR RESIDUE SO4 A 408
09AC9SOFTWAREARG A:268 , LYS A:317 , ARG A:321 , ASN B:324 , ASP B:325BINDING SITE FOR RESIDUE SO4 A 409
10BC1SOFTWAREGLY B:47 , ARG B:48 , GLY B:49 , LYS B:50 , TYR B:51 , SER B:52 , VAL B:54 , VAL B:67 , LYS B:69 , VAL B:155 , ASN B:157 , ASP B:195 , LYS B:197 , HIS B:199 , ASN B:200 , MET B:202 , ILE B:213 , ASP B:214 , MN B:402 , MN B:403 , GOL B:404 , HOH B:501 , HOH B:503 , HOH B:538 , HOH B:552 , HOH B:566 , HOH B:609 , HOH B:622 , HOH B:633 , HOH B:635BINDING SITE FOR RESIDUE GNP B 401
11BC2SOFTWAREASP B:214 , GNP B:401 , HOH B:538 , HOH B:550BINDING SITE FOR RESIDUE MN B 402
12BC3SOFTWAREASN B:200 , ASP B:214 , GNP B:401 , HOH B:503BINDING SITE FOR RESIDUE MN B 403
13BC4SOFTWAREVAL B:46 , ASN B:157 , ASP B:159 , GNP B:401 , HOH B:635BINDING SITE FOR RESIDUE GOL B 404
14BC5SOFTWAREARG B:81 , ARG B:194 , ASN B:228 , HOH B:527 , HOH B:673 , HOH B:699BINDING SITE FOR RESIDUE SO4 B 405
15BC6SOFTWAREASN A:324 , ASP A:325 , ARG B:268 , LYS B:317 , ARG B:321BINDING SITE FOR RESIDUE SO4 B 406
16BC7SOFTWAREARG A:161 , LYS B:166 , HOH B:640 , HOH B:680BINDING SITE FOR RESIDUE SO4 B 407
17BC8SOFTWAREARG B:316 , PRO B:318 , TRP B:319 , HIS B:320 , HOH B:718BINDING SITE FOR RESIDUE SO4 B 408
18BC9SOFTWAREARG B:230 , ARG B:234 , ASN B:277 , HOH B:617 , HOH B:669BINDING SITE FOR RESIDUE SO4 B 409

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:269 -Pro A:270
2Glu B:269 -Pro B:270

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4LFI)

(-) 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:370
                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhh..............eeeeeeeeee..eeeeeeee.....eeeeeee...hhhhhhhhhhhhhhhhhh..hhhhh..hhhhhh...hhhhhh...........hhhhhh..eeeeee......eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eeeehhhheeee......ee............hhhhhhhhhhh......hhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh........hhhhhh...hhhhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lfi A   2 KCRVWSEARVYTNINKQRTEEYWDYENTVIDWSTNTKDYEIENKVGRGKYSEVFQGVKLDSKVKIVIKMLKPVKKKKIKREIKILTDLSNEKVPPTTLPFQKDQYYTNQKEDVLKFIRPYIFDQPHNGHANIIHLFDIIKDPISKTPALVFEYVDNVDFRILYPKLTDLEIRFYMFELLKALDYCHSMGIMHRDVKPHNVMIDHKNKKLRLIDWGLAEFYHVNMEYNVRVASRFFKGPELLVDYRMYDYSLDLWSFGTMLASMIFKREPFFHGTSNTDQLVKIVKVLGTSDFEKYLLKYEITLPREFYDMDQYIRKPWHRFINDGNKHLSGNDEIIDLIDNLLRYDHQERLTAKEAMGHPWFAPIREQIE 371
                                    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       341       351       361       371


Chain B from PDB  Type:PROTEIN  Length:371
                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhhh..........hhh.eeeeeeeeee..eeeeeeee.....eeeeeee...hhhhhhhhhhhhhhhhhh..hhhhh..hhhhhh...hhhhhh...........hhhhhh..eeeeee......eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eeeehhhheeee......ee............hhhhhhhhhhh......hhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhh......hhhhhh...hhhhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lfi B   1 MKCRVWSEARVYTNINKQRTEEYWDYENTVIDWSTNTKDYEIENKVGRGKYSEVFQGVKLDSKVKIVIKMLKPVKKKKIKREIKILTDLSNEKVPPTTLPFQKDQYYTNQKEDVLKFIRPYIFDQPHNGHANIIHLFDIIKDPISKTPALVFEYVDNVDFRILYPKLTDLEIRFYMFELLKALDYCHSMGIMHRDVKPHNVMIDHKNKKLRLIDWGLAEFYHVNMEYNVRVASRFFKGPELLVDYRMYDYSLDLWSFGTMLASMIFKREPFFHGTSNTDQLVKIVKVLGTSDFEKYLLKYEITLPREFYDMDQYIRKPWHRFINDGNKHLSGNDEIIDLIDNLLRYDHQERLTAKEAMGHPWFAPIREQIE 371
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370
   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 4LFI)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (19, 19)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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        CSK21_YEAST | P15790: 4fi1 4jqe 4jr7 4mwh

(-) Related Entries Specified in the PDB File

4fi1