HEADER    TRANSCRIPTION/DNA                       30-JAN-09   2KEK              
TITLE     SOLUTION STRUCTURE OF A DIMER OF LAC REPRESSOR DNA-BINDING DOMAIN     
TITLE    2 COMPLEXED TO ITS NATURAL OPERATOR O3                                 
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: LACTOSE OPERON REPRESSOR;                                  
COMPND   3 CHAIN: A, B;                                                         
COMPND   4 FRAGMENT: UNP RESIDUES 1-62;                                         
COMPND   5 ENGINEERED: YES;                                                     
COMPND   6 MUTATION: YES;                                                       
COMPND   7 MOL_ID: 2;                                                           
COMPND   8 MOLECULE: DNA (5'-                                                   
COMPND   9 D(*CP*GP*GP*CP*AP*GP*TP*GP*AP*GP*CP*GP*CP*AP*AP*CP*GP*CP*AP*AP*TP*TP*
COMPND  10 C)-3');                                                              
COMPND  11 CHAIN: C;                                                            
COMPND  12 ENGINEERED: YES;                                                     
COMPND  13 MOL_ID: 3;                                                           
COMPND  14 MOLECULE: DNA (5'-                                                   
COMPND  15 D(P*GP*AP*AP*TP*TP*GP*CP*GP*TP*TP*GP*CP*GP*CP*TP*CP*AP*CP*TP*GP*CP*CP
COMPND  16 *G)-3');                                                             
COMPND  17 CHAIN: D;                                                            
COMPND  18 ENGINEERED: YES                                                      
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI;                               
SOURCE   3 ORGANISM_TAXID: 83333;                                               
SOURCE   4 STRAIN: K-12;                                                        
SOURCE   5 GENE: LACI, B0345, JW0336;                                           
SOURCE   6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;                                 
SOURCE   7 EXPRESSION_SYSTEM_TAXID: 562;                                        
SOURCE   8 EXPRESSION_SYSTEM_STRAIN: DH9;                                       
SOURCE   9 MOL_ID: 2;                                                           
SOURCE  10 SYNTHETIC: YES;                                                      
SOURCE  11 MOL_ID: 3;                                                           
SOURCE  12 SYNTHETIC: YES                                                       
KEYWDS    LAC REPRESSOR, LAC OPERATORS, PROTEIN-DNA COMPLEX, DNA-BINDING,       
KEYWDS   2 REPRESSOR, TRANSCRIPTION, TRANSCRIPTION REGULATION, TRANSCRIPTION-   
KEYWDS   3 DNA COMPLEX                                                          
EXPDTA    SOLUTION NMR                                                          
NUMMDL    10                                                                    
AUTHOR    J.ROMANUKA,G.FOLKERS,N.BIRIS,E.TISHCHENKO,H.WIENK,R.KAPTEIN,R.BOELENS 
REVDAT   5   20-NOV-24 2KEK    1       REMARK                                   
REVDAT   4   20-OCT-21 2KEK    1       REMARK DBREF  SEQADV                     
REVDAT   3   07-JUL-09 2KEK    1       JRNL                                     
REVDAT   2   16-JUN-09 2KEK    1       ATOM                                     
REVDAT   1   19-MAY-09 2KEK    0                                                
JRNL        AUTH   J.ROMANUKA,G.E.FOLKERS,N.BIRIS,E.TISHCHENKO,H.WIENK,         
JRNL        AUTH 2 A.M.BONVIN,R.KAPTEIN,R.BOELENS                               
JRNL        TITL   SPECIFICITY AND AFFINITY OF LAC REPRESSOR FOR THE AUXILIARY  
JRNL        TITL 2 OPERATORS O2 AND O3 ARE EXPLAINED BY THE STRUCTURES OF THEIR 
JRNL        TITL 3 PROTEIN-DNA COMPLEXES.                                       
JRNL        REF    J.MOL.BIOL.                   V. 390   478 2009              
JRNL        REFN                   ISSN 0022-2836                               
JRNL        PMID   19450607                                                     
JRNL        DOI    10.1016/J.JMB.2009.05.022                                    
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : CNS 1.2, HADDOCK 2.1                                 
REMARK   3   AUTHORS     : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ         
REMARK   3                 (CNS), DOMINGUEZ, BOELENS, BONVIN (HADDOCK)          
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: NULL                                      
REMARK   4                                                                      
REMARK   4 2KEK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-FEB-09.                  
REMARK 100 THE DEPOSITION ID IS D_1000101023.                                   
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : 315                                
REMARK 210  PH                             : 6                                  
REMARK 210  IONIC STRENGTH                 : 0.03                               
REMARK 210  PRESSURE                       : AMBIENT                            
REMARK 210  SAMPLE CONTENTS                : 0.7 MM DNA (5'-STRAND1-3'), 0.7    
REMARK 210                                   MM DNA (5'-STRAND2-3'), 0.7 MM     
REMARK 210                                   LAC HEADPIECE DIMER, 5% D2O, 10    
REMARK 210                                   MM POTASSIUM PHOSPHATE, 20 MM      
REMARK 210                                   POTASSIUM CHLORIDE, 5% U-100% 2H   
REMARK 210                                   D8-GLYCEROL, 0.01% SODIUM AZIDE,   
REMARK 210                                   95% H2O/5% D2O                     
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : 3D 1H-13C NOESY; 3D 1H-15N         
REMARK 210                                   NOESY; 2D 1H-1H NOESY              
REMARK 210  SPECTROMETER FIELD STRENGTH    : 750 MHZ; 600 MHZ; 900 MHZ; 500     
REMARK 210                                   MHZ                                
REMARK 210  SPECTROMETER MODEL             : AVANCE                             
REMARK 210  SPECTROMETER MANUFACTURER      : BRUKER                             
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : XWINNMR, NMRPIPE                   
REMARK 210   METHOD USED                   : SIMULATED ANNEALING                
REMARK 210                                                                      
REMARK 210 CONFORMERS, NUMBER CALCULATED   : 200                                
REMARK 210 CONFORMERS, NUMBER SUBMITTED    : 10                                 
REMARK 210 CONFORMERS, SELECTION CRITERIA  : STRUCTURES WITH THE LOWEST         
REMARK 210                                   ENERGY                             
REMARK 210                                                                      
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1                   
REMARK 210                                                                      
REMARK 210 REMARK: NULL                                                         
REMARK 215                                                                      
REMARK 215 NMR STUDY                                                            
REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION           
REMARK 215 NMR DATA.  PROTEIN DATA BANK CONVENTIONS REQUIRE THAT                
REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON              
REMARK 215 THESE RECORDS ARE MEANINGLESS.                                       
REMARK 300                                                                      
REMARK 300 BIOMOLECULE: 1                                                       
REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM                
REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN                  
REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON               
REMARK 300 BURIED SURFACE AREA.                                                 
REMARK 350                                                                      
REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN           
REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE                
REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS          
REMARK 350 GIVEN BELOW.  BOTH NON-CRYSTALLOGRAPHIC AND                          
REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN.                               
REMARK 350                                                                      
REMARK 350 BIOMOLECULE: 1                                                       
REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC                        
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D                            
REMARK 350   BIOMT1   1  1.000000  0.000000  0.000000        0.00000            
REMARK 350   BIOMT2   1  0.000000  1.000000  0.000000        0.00000            
REMARK 350   BIOMT3   1  0.000000  0.000000  1.000000        0.00000            
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: CLOSE CONTACTS                                             
REMARK 500                                                                      
REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT.                            
REMARK 500                                                                      
REMARK 500  ATM1  RES C  SSEQI   ATM2  RES C  SSEQI           DISTANCE          
REMARK 500   O2    DC C    -1     H22   DG D    22              0.99            
REMARK 500   H22   DG C     1     O2    DC D    21              1.50            
REMARK 500   N3    DC C    -1     H1    DG D    22              1.58            
REMARK 500   OE1  GLU A    36     HZ1  LYS A    37              1.60            
REMARK 500   O2    DC C    -1     N2    DG D    22              1.97            
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: TORSION ANGLES                                             
REMARK 500                                                                      
REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS:            
REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;               
REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).                             
REMARK 500                                                                      
REMARK 500 STANDARD TABLE:                                                      
REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2)                    
REMARK 500                                                                      
REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI-           
REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400            
REMARK 500                                                                      
REMARK 500  M RES CSSEQI        PSI       PHI                                   
REMARK 500  1 THR A   5     -168.43   -110.42                                   
REMARK 500  1 GLN A  26      -33.50   -134.02                                   
REMARK 500  1 SER A  28     -134.97    -72.82                                   
REMARK 500  1 SER A  31       -7.85     67.31                                   
REMARK 500  1 ALA A  32      -27.96     75.12                                   
REMARK 500  1 PRO A  49       50.64    -67.99                                   
REMARK 500  1 ASN A  50     -160.15     54.76                                   
REMARK 500  1 ARG A  51      -40.16   -145.13                                   
REMARK 500  1 TYR B  17      -56.23     70.97                                   
REMARK 500  1 ASN B  25      -63.89   -103.55                                   
REMARK 500  1 GLN B  26       54.53   -167.40                                   
REMARK 500  1 SER B  28      -85.33   -124.44                                   
REMARK 500  1 ASN B  46       86.14     65.16                                   
REMARK 500  1 CYS B  52      -69.84   -158.43                                   
REMARK 500  2 PRO A   3       88.92    -62.97                                   
REMARK 500  2 GLN A  26      -32.30   -160.22                                   
REMARK 500  2 SER A  31      -23.67     65.19                                   
REMARK 500  2 ALA A  32      -19.63     72.72                                   
REMARK 500  2 ASN A  46       83.29     64.99                                   
REMARK 500  2 PRO A  49       18.09    -63.99                                   
REMARK 500  2 ASN A  50      165.06     60.09                                   
REMARK 500  2 ALA A  53      -44.76    174.49                                   
REMARK 500  2 VAL B  24      -74.05    -67.52                                   
REMARK 500  2 ASN B  25       67.00   -155.33                                   
REMARK 500  2 GLN B  26      -66.42   -139.39                                   
REMARK 500  2 HIS B  29       41.49    -81.34                                   
REMARK 500  2 PRO B  49       95.87    -43.98                                   
REMARK 500  2 ALA B  53      -25.70    176.95                                   
REMARK 500  2 LYS B  59       55.04    -91.74                                   
REMARK 500  3 PRO A   3       46.81    -75.91                                   
REMARK 500  3 THR A   5     -169.53   -126.50                                   
REMARK 500  3 ASN A  25      -65.64    -94.68                                   
REMARK 500  3 SER A  28     -155.08    -91.68                                   
REMARK 500  3 HIS A  29       99.60    -66.64                                   
REMARK 500  3 VAL A  30       69.76   -106.76                                   
REMARK 500  3 SER A  31      -18.96     67.69                                   
REMARK 500  3 PRO A  49       30.73    -66.98                                   
REMARK 500  3 ASN A  50     -173.48     57.93                                   
REMARK 500  3 ARG A  51      -42.97   -137.31                                   
REMARK 500  3 LEU A  56       -7.11    -58.35                                   
REMARK 500  3 LYS A  59     -139.49     63.91                                   
REMARK 500  3 GLN A  60      -74.15     64.38                                   
REMARK 500  3 LYS B   2      -52.32   -150.82                                   
REMARK 500  3 TYR B  17       17.39     58.30                                   
REMARK 500  3 ASN B  25      -76.67    -95.86                                   
REMARK 500  3 SER B  28      -80.42   -142.07                                   
REMARK 500  3 HIS B  29       57.50    -99.75                                   
REMARK 500  3 PRO B  49       99.31    -50.68                                   
REMARK 500  3 CYS B  52      -69.34   -176.30                                   
REMARK 500  4 ASN A  25      -64.40    -90.91                                   
REMARK 500                                                                      
REMARK 500 THIS ENTRY HAS     160 RAMACHANDRAN OUTLIERS.                        
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: 1L1M   RELATED DB: PDB                                   
REMARK 900 RELATED ID: 2KEI   RELATED DB: PDB                                   
REMARK 900 SAME PROTEIN BOUND TO ITS NATURAL OPERATOR O1                        
REMARK 900 RELATED ID: 2KEJ   RELATED DB: PDB                                   
REMARK 900 SAME PROTEIN BOUND TO ITS NATURAL OPERATOR O2                        
DBREF  2KEK A    1    62  UNP    P03023   LACI_ECOLI       1     62             
DBREF  2KEK B    1    62  UNP    P03023   LACI_ECOLI       1     62             
DBREF  2KEK C   -1    22  PDB    2KEK     2KEK            -1     22             
DBREF  2KEK D   -1    22  PDB    2KEK     2KEK            -1     22             
SEQADV 2KEK CYS A   52  UNP  P03023    VAL    52 ENGINEERED MUTATION            
SEQADV 2KEK CYS B   52  UNP  P03023    VAL    52 ENGINEERED MUTATION            
SEQRES   1 A   62  MET LYS PRO VAL THR LEU TYR ASP VAL ALA GLU TYR ALA          
SEQRES   2 A   62  GLY VAL SER TYR GLN THR VAL SER ARG VAL VAL ASN GLN          
SEQRES   3 A   62  ALA SER HIS VAL SER ALA LYS THR ARG GLU LYS VAL GLU          
SEQRES   4 A   62  ALA ALA MET ALA GLU LEU ASN TYR ILE PRO ASN ARG CYS          
SEQRES   5 A   62  ALA GLN GLN LEU ALA GLY LYS GLN SER LEU                      
SEQRES   1 B   62  MET LYS PRO VAL THR LEU TYR ASP VAL ALA GLU TYR ALA          
SEQRES   2 B   62  GLY VAL SER TYR GLN THR VAL SER ARG VAL VAL ASN GLN          
SEQRES   3 B   62  ALA SER HIS VAL SER ALA LYS THR ARG GLU LYS VAL GLU          
SEQRES   4 B   62  ALA ALA MET ALA GLU LEU ASN TYR ILE PRO ASN ARG CYS          
SEQRES   5 B   62  ALA GLN GLN LEU ALA GLY LYS GLN SER LEU                      
SEQRES   1 C   23   DC  DG  DG  DC  DA  DG  DT  DG  DA  DG  DC  DG  DC          
SEQRES   2 C   23   DA  DA  DC  DG  DC  DA  DA  DT  DT  DC                      
SEQRES   1 D   23   DG  DA  DA  DT  DT  DG  DC  DG  DT  DT  DG  DC  DG          
SEQRES   2 D   23   DC  DT  DC  DA  DC  DT  DG  DC  DC  DG                      
HELIX    1   1 THR A    5  GLY A   14  1                                  10    
HELIX    2   2 SER A   16  GLN A   26  1                                  11    
HELIX    3   3 THR A   34  LEU A   45  1                                  12    
HELIX    4   4 CYS A   52  ALA A   57  1                                   6    
HELIX    5   5 THR B    5  GLY B   14  1                                  10    
HELIX    6   6 TYR B   17  GLN B   26  1                                  10    
HELIX    7   7 SER B   31  ASN B   46  1                                  16    
HELIX    8   8 CYS B   52  LYS B   59  1                                   8    
SSBOND   1 CYS A   52    CYS B   52                          1555   1555  2.03  
CRYST1    1.000    1.000    1.000  90.00  90.00  90.00 P 1           1          
ORIGX1      1.000000  0.000000  0.000000        0.00000                         
ORIGX2      0.000000  1.000000  0.000000        0.00000                         
ORIGX3      0.000000  0.000000  1.000000        0.00000                         
SCALE1      1.000000  0.000000  0.000000        0.00000                         
SCALE2      0.000000  1.000000  0.000000        0.00000                         
SCALE3      0.000000  0.000000  1.000000        0.00000                         
MODEL        1