PDB Short entry for 1J46
HEADER    TRANSCRIPTION/DNA                       23-JUL-01   1J46              
TITLE     3D SOLUTION NMR STRUCTURE OF THE WILD TYPE HMG-BOX DOMAIN             
TITLE    2 OF THE HUMAN MALE SEX DETERMINING FACTOR SRY COMPLEXED TO            
TITLE    3 DNA                                                                  
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: SEX-DETERMINING REGION Y PROTEIN;                          
COMPND   3 CHAIN: A;                                                            
COMPND   4 FRAGMENT: HMG-BOX DOMAIN;                                            
COMPND   5 SYNONYM: SRY;                                                        
COMPND   6 ENGINEERED: YES;                                                     
COMPND   7 MOL_ID: 2;                                                           
COMPND   8 MOLECULE: 5'-D(*CP*CP*TP*GP*CP*AP*CP*AP*AP*AP*CP*AP*CP*C)-           
COMPND   9 3';                                                                  
COMPND  10 CHAIN: B;                                                            
COMPND  11 ENGINEERED: YES;                                                     
COMPND  12 MOL_ID: 3;                                                           
COMPND  13 MOLECULE: 5'-D(*GP*GP*TP*GP*TP*TP*TP*GP*TP*GP*CP*AP*GP*G)-           
COMPND  14 3';                                                                  
COMPND  15 CHAIN: C;                                                            
COMPND  16 ENGINEERED: YES                                                      
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;                                   
SOURCE   3 ORGANISM_COMMON: HUMAN;                                              
SOURCE   4 ORGANISM_TAXID: 9606;                                                
SOURCE   5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3);                       
SOURCE   6 EXPRESSION_SYSTEM_TAXID: 469008;                                     
SOURCE   7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3);                                 
SOURCE   8 EXPRESSION_SYSTEM_VECTOR: PET21A;                                    
SOURCE   9 MOL_ID: 2;                                                           
SOURCE  10 SYNTHETIC: YES;                                                      
SOURCE  11 MOL_ID: 3;                                                           
SOURCE  12 SYNTHETIC: YES                                                       
KEYWDS    MALE SEX DETERMINING FACTOR, SRY, SEX-REVERSAL MUTATION,              
KEYWDS   2 DNA BENDING MUTANT, DIPOLAR COUPLINGS, MULTIDIMENSIONAL NMR,         
KEYWDS   3 TRANSCRIPTION/DNA COMPLEX                                            
EXPDTA    SOLUTION NMR                                                          
AUTHOR    G.M.CLORE,E.C.MURPHY                                                  
REVDAT   3   24-FEB-09 1J46    1       VERSN                                    
REVDAT   2   01-APR-03 1J46    1       JRNL                                     
REVDAT   1   03-OCT-01 1J46    0                                                
JRNL        AUTH   E.C.MURPHY,V.B.ZHURKIN,J.M.LOUIS,G.CORNILESCU,               
JRNL        AUTH 2 G.M.CLORE                                                    
JRNL        TITL   STRUCTURAL BASIS FOR SRY-DEPENDENT 46-X,Y SEX                
JRNL        TITL 2 REVERSAL: MODULATION OF DNA BENDING BY A NATURALLY           
JRNL        TITL 3 OCCURRING POINT MUTATION.                                    
JRNL        REF    J.MOL.BIOL.                   V. 312   481 2001              
JRNL        REFN                   ISSN 0022-2836                               
JRNL        PMID   11563911                                                     
JRNL        DOI    10.1006/JMBI.2001.4977                                       
REMARK   1                                                                      
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : X-PLOR NIH VERSION (HTTP://NMR.CIT.NIH.GOV)          
REMARK   3                 (HTTP://NMR.CIT.NIH.GOV)                             
REMARK   3   AUTHORS     : CLORE, KUSZEWSKI, SCHWIETERS                         
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS:                                           
REMARK   3  THE STRUCTURE WAS CALCULATED BY SIMULATED ANNEALING IN              
REMARK   3  TORSION ANGLE SPACE (C. SCHWIETERS AND G.M. CLORE. J. MAGN.         
REMARK   3  RESON., IN PRESS).  THE TARGET FUNCTION COMPRISES TERMS FOR         
REMARK   3  NOE RESTRAINTS, TORSION ANGLE RESTRAINTS, CARBON CHEMICAL           
REMARK   3  SHIFT RESTRAINTS (KUSZWESKI ET AL. J. MAGN. RESON. SERIES B         
REMARK   3  106, 92-96 (1995), J COUPLING RESTRAINTS (GARRETT ET AL. J.         
REMARK   3  MAGN. RESON. SERIES B 104, 99, 103 (1994); DIPOLAR COUPLING         
REMARK   3  RESTRAINTS (CLORE ET AL. J.MAGN.RESON. 131, 159-162 (1998);         
REMARK   3  J.MAGN.RESON. 133, 216-221(1998)), AND RADIUS OF GYRATION           
REMARK   3  (KUSZEWSKI ET AL. JACS 121, 2337 (1999)). THE NON-BONDED            
REMARK   3  CONTACTS ARE REPRESENTED BY A QUARTIC VAN DER WAALS                 
REMARK   3  REPULSION TERM (NILGES ET AL. (1988) FEBS LETT. 229,                
REMARK   3  129-136); THE DELPHIC TORSION ANGLE DATABASE POTENTIAL              
REMARK   3  (KUSZEWSKI & C J. MAGN. RESON. 146, 249 (2000)); AND THE            
REMARK   3  DELPHIC BASE-BASE POSITIONAL DATABASE POTENTIAL (KUSZEWSKI          
REMARK   3  ET AL. JACS 123, 3903 (2001)). IN THIS ENTRY THE SECOND TO          
REMARK   3  LAST COLUMN REPRESENTS THE AVERAGE RMS DIFFERENCE BETWEEN           
REMARK   3  THE INDIVIDUAL SIMULATED ANNEALING STRUCTURES (400 FOR THE          
REMARK   3  WILD TYPE COMPLEX) AND THE MEAN COORDINATE POSITIONS                
REMARK   3  (OBTAINED BY BEST FITTING TO RESIDUES 4-81 OF THE PROTEIN           
REMARK   3  AND 101-128 OF THE DNA).                                            
REMARK   3                                                                      
REMARK   3                                WILD TYPE      M9I MUTANT             
REMARK   3  PDB ID:                       1J46           1J47                   
REMARK   3                                                                      
REMARK   3  DEVIATIONS FROM IDEALIZED GEOMETRY:                                 
REMARK   3  BONDS                         0.003 A        0.003 A                
REMARK   3  ANGLES                        0.81 DEG       0.80 DEG               
REMARK   3  IMPROPERS                     0.79 DEG       0.79 DEG               
REMARK   3                                                                      
REMARK   3  DEVIATIONS FROM EXPT RESTRAINTS                                     
REMARK   3  NOES (1795/1693)              0.04 A         0.03 A                 
REMARK   3  TORSION ANGLES (433/429)      0.29 DEG       0.30 DEG               
REMARK   3  3JHNA COUPLINGS (70/66)       0.84 HZ        0.90 HZ                
REMARK   3  13C CHEMICAL SHIFTS (165/165) 0.99 PPM       0.95 PPM               
REMARK   3                                                                      
REMARK   3  HETERONUCLEAR DIPOLAR COUPLING R-FACTORS                            
REMARK   3  (CLORE AND GARRETT  J. AM. CHEM. SOC. 121, 9008-9012):              
REMARK   3                                                                      
REMARK   3  PROTEIN 1DNH (71/66)          5.5%           7.6%                   
REMARK   3  PROTEIN 1DCH (67/67)          6.3%          10.0%                   
REMARK   3  PROTEIN 1DNC' (68/62)        18.9%          28.9%                   
REMARK   3  PROTEIN 2DHNC'(68/62)        18.8%          21.6%                   
REMARK   3  DNA 1DNH (9/10)              10.2%          16.1%                   
REMARK   3  DNA 1DCH (37/33)             11.2%          10.7%                   
REMARK   3  DNA 1H-1H DIPOLAR                                                   
REMARK   3                                                                      
REMARK   3          COUPLINGS (55/53)     0.56 HZ        0.75 HZ                
REMARK   3  % RESIDUES IN MOST FAVORABLE                                        
REMARK   3  REGION OF RAMACHADRAN MAP    94.7%          94.7%                   
REMARK   4                                                                      
REMARK   4 1J46 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-JUL-01.                  
REMARK 100 THE RCSB ID CODE IS RCSB001590.                                      
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : 308.00                             
REMARK 210  PH                             : 7.2                                
REMARK 210  IONIC STRENGTH                 : 50 MM SODIUM PHOSPHATE             
REMARK 210  PRESSURE                       : NULL                               
REMARK 210  SAMPLE CONTENTS                : NULL                               
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : NULL                               
REMARK 210  SPECTROMETER FIELD STRENGTH    : 500 MHZ, 600 MHZ, 750 MHZ          
REMARK 210  SPECTROMETER MODEL             : DMX500, DRX600, DRX750             
REMARK 210  SPECTROMETER MANUFACTURER      : BRUKER                             
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : NULL                               
REMARK 210   METHOD USED                   : NULL                               
REMARK 210                                                                      
REMARK 210 CONFORMERS, NUMBER CALCULATED   : 400                                
REMARK 210 CONFORMERS, NUMBER SUBMITTED    : 1                                  
REMARK 210 CONFORMERS, SELECTION CRITERIA  : RESTRAINED REGULARIZED MEAN        
REMARK 210                                   STRUCTURE                          
REMARK 210                                                                      
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL                
REMARK 210                                                                      
REMARK 210 REMARK: THE FOLLOWING EXPERIMENTS WERE CONDUCTED: (1)  DOUBLE        
REMARK 210  AND TRIPLE RESONANCE FOR ASSIGNMENT OF PROTEIN; (2) DOUBLE          
REMARK 210  RESONANCE AND HETERONUCLEAR FILTERED FOR DNA; (3) QUANTITATIVE      
REMARK 210  J CORRELATION FOR COUPLING CONSTANTS; (4) 2D, 3D AND 4D             
REMARK 210  HETERONUCLEAR SEPARATED AND FILTERED NOE EXPERIMENTS; (4) 2D        
REMARK 210  AND 3D DOUBLE AND TRIPLE RESONANCE EXPERIMENTS FOR DIPOLAR          
REMARK 210  COUPLING MEASUREMENTS IN LIQUID CRYSTALLINE MEDIUM OF 4.5-5%        
REMARK 210  3:1 DMPC:DHPC                                                       
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 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: COVALENT BOND ANGLES                                       
REMARK 500                                                                      
REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES              
REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE               
REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN               
REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).                 
REMARK 500                                                                      
REMARK 500 STANDARD TABLE:                                                      
REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1)              
REMARK 500                                                                      
REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999                        
REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996                     
REMARK 500                                                                      
REMARK 500  M RES CSSEQI ATM1   ATM2   ATM3                                     
REMARK 500     DT C 119   C6  -  C5  -  C7  ANGL. DEV. =  -4.1 DEGREES          
REMARK 500     DT C 121   C6  -  C5  -  C7  ANGL. DEV. =  -4.5 DEGREES          
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: 1J47   RELATED DB: PDB                                   
REMARK 900 M9I MUTANT OF THE HMG-BOX DOMAIN OF THE HUMAN MALE SEX               
REMARK 900 DETERMINING FACTOR SRY COMPLEXED TO DNA                              
DBREF  1J46 A    2    85  UNP    Q05066   SRY_HUMAN       57    140             
DBREF  1J46 B  101   114  PDB    1J46     1J46           101    114             
DBREF  1J46 C  115   128  PDB    1J46     1J46           115    128             
SEQADV 1J46 MET A    1  UNP  Q05066              CLONING ARTIFACT               
SEQRES   1 A   85  MET GLN ASP ARG VAL LYS ARG PRO MET ASN ALA PHE ILE          
SEQRES   2 A   85  VAL TRP SER ARG ASP GLN ARG ARG LYS MET ALA LEU GLU          
SEQRES   3 A   85  ASN PRO ARG MET ARG ASN SER GLU ILE SER LYS GLN LEU          
SEQRES   4 A   85  GLY TYR GLN TRP LYS MET LEU THR GLU ALA GLU LYS TRP          
SEQRES   5 A   85  PRO PHE PHE GLN GLU ALA GLN LYS LEU GLN ALA MET HIS          
SEQRES   6 A   85  ARG GLU LYS TYR PRO ASN TYR LYS TYR ARG PRO ARG ARG          
SEQRES   7 A   85  LYS ALA LYS MET LEU PRO LYS                                  
SEQRES   1 B   14   DC  DC  DT  DG  DC  DA  DC  DA  DA  DA  DC  DA  DC          
SEQRES   2 B   14   DC                                                          
SEQRES   1 C   14   DG  DG  DT  DG  DT  DT  DT  DG  DT  DG  DC  DA  DG          
SEQRES   2 C   14   DG                                                          
HELIX    1   1 ASN A   10  ASN A   27  1                                  18    
HELIX    2   2 ARG A   31  LYS A   44  1                                  14    
HELIX    3   3 THR A   47  TYR A   69  1                                  23    
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