HEADER    LIGASE                                  10-MAY-99   1QCQ              
TITLE     UBIQUITIN CONJUGATING ENZYME                                          
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: PROTEIN (UBIQUITIN CONJUGATING ENZYME);                    
COMPND   3 CHAIN: A;                                                            
COMPND   4 EC: 6.3.2.19                                                         
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE;                       
SOURCE   3 ORGANISM_COMMON: BAKER'S YEAST;                                      
SOURCE   4 ORGANISM_TAXID: 4932                                                 
KEYWDS    UBIQUITIN, UBIQUITIN-CONJUGATING ENZYME, YEAST, LIGASE                
EXPDTA    X-RAY DIFFRACTION                                                     
AUTHOR    W.J.COOK,L.C.JEFFREY,Y.XU,V.CHAU                                      
REVDAT   5   14-FEB-24 1QCQ    1       REMARK                                   
REVDAT   4   04-OCT-17 1QCQ    1       REMARK                                   
REVDAT   3   24-FEB-09 1QCQ    1       VERSN                                    
REVDAT   2   06-MAR-00 1QCQ    1       HEADER COMPND REMARK                     
REVDAT   1   17-MAY-99 1QCQ    0                                                
SPRSDE     17-MAY-99 1QCQ      2UCE                                             
JRNL        AUTH   W.J.COOK,L.C.JEFFREY,Y.XU,V.CHAU                             
JRNL        TITL   TERTIARY STRUCTURES OF CLASS I UBIQUITIN-CONJUGATING ENZYMES 
JRNL        TITL 2 ARE HIGHLY CONSERVED: CRYSTAL STRUCTURE OF YEAST UBC4.       
JRNL        REF    BIOCHEMISTRY                  V.  32 13809 1993              
JRNL        REFN                   ISSN 0006-2960                               
JRNL        PMID   8268156                                                      
JRNL        DOI    10.1021/BI00213A009                                          
REMARK   2                                                                      
REMARK   2 RESOLUTION.    2.70 ANGSTROMS.                                       
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : CNS 0.4                                              
REMARK   3   AUTHORS     : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE-              
REMARK   3               : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU,              
REMARK   3               : READ,RICE,SIMONSON,WARREN                            
REMARK   3                                                                      
REMARK   3  REFINEMENT TARGET : ENGH & HUBER                                    
REMARK   3                                                                      
REMARK   3  DATA USED IN REFINEMENT.                                            
REMARK   3   RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70                           
REMARK   3   RESOLUTION RANGE LOW  (ANGSTROMS) : 100.00                         
REMARK   3   DATA CUTOFF            (SIGMA(F)) : 0.000                          
REMARK   3   DATA CUTOFF HIGH         (ABS(F)) : NULL                           
REMARK   3   DATA CUTOFF LOW          (ABS(F)) : NULL                           
REMARK   3   COMPLETENESS (WORKING+TEST)   (%) : 91.8                           
REMARK   3   NUMBER OF REFLECTIONS             : 5624                           
REMARK   3                                                                      
REMARK   3  FIT TO DATA USED IN REFINEMENT.                                     
REMARK   3   CROSS-VALIDATION METHOD          : THROUGHOUT                      
REMARK   3   FREE R VALUE TEST SET SELECTION  : RANDOM                          
REMARK   3   R VALUE            (WORKING SET) : 0.240                           
REMARK   3   FREE R VALUE                     : 0.296                           
REMARK   3   FREE R VALUE TEST SET SIZE   (%) : 5.800                           
REMARK   3   FREE R VALUE TEST SET COUNT      : 325                             
REMARK   3   ESTIMATED ERROR OF FREE R VALUE  : 0.016                           
REMARK   3                                                                      
REMARK   3  FIT IN THE HIGHEST RESOLUTION BIN.                                  
REMARK   3   TOTAL NUMBER OF BINS USED           : 6                            
REMARK   3   BIN RESOLUTION RANGE HIGH       (A) : 2.70                         
REMARK   3   BIN RESOLUTION RANGE LOW        (A) : 2.87                         
REMARK   3   BIN COMPLETENESS (WORKING+TEST) (%) : 74.10                        
REMARK   3   REFLECTIONS IN BIN    (WORKING SET) : 686                          
REMARK   3   BIN R VALUE           (WORKING SET) : 0.4090                       
REMARK   3   BIN FREE R VALUE                    : 0.3390                       
REMARK   3   BIN FREE R VALUE TEST SET SIZE  (%) : 6.50                         
REMARK   3   BIN FREE R VALUE TEST SET COUNT     : 48                           
REMARK   3   ESTIMATED ERROR OF BIN FREE R VALUE : 0.049                        
REMARK   3                                                                      
REMARK   3  NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.                    
REMARK   3   PROTEIN ATOMS            : 1161                                    
REMARK   3   NUCLEIC ACID ATOMS       : 0                                       
REMARK   3   HETEROGEN ATOMS          : 0                                       
REMARK   3   SOLVENT ATOMS            : 0                                       
REMARK   3                                                                      
REMARK   3  B VALUES.                                                           
REMARK   3   FROM WILSON PLOT           (A**2) : 37.50                          
REMARK   3   MEAN B VALUE      (OVERALL, A**2) : 24.00                          
REMARK   3   OVERALL ANISOTROPIC B VALUE.                                       
REMARK   3    B11 (A**2) : NULL                                                 
REMARK   3    B22 (A**2) : NULL                                                 
REMARK   3    B33 (A**2) : NULL                                                 
REMARK   3    B12 (A**2) : NULL                                                 
REMARK   3    B13 (A**2) : NULL                                                 
REMARK   3    B23 (A**2) : NULL                                                 
REMARK   3                                                                      
REMARK   3  ESTIMATED COORDINATE ERROR.                                         
REMARK   3   ESD FROM LUZZATI PLOT        (A) : 0.38                            
REMARK   3   ESD FROM SIGMAA              (A) : 0.47                            
REMARK   3   LOW RESOLUTION CUTOFF        (A) : 5.00                            
REMARK   3                                                                      
REMARK   3  CROSS-VALIDATED ESTIMATED COORDINATE ERROR.                         
REMARK   3   ESD FROM C-V LUZZATI PLOT    (A) : 0.43                            
REMARK   3   ESD FROM C-V SIGMAA          (A) : 0.34                            
REMARK   3                                                                      
REMARK   3  RMS DEVIATIONS FROM IDEAL VALUES.                                   
REMARK   3   BOND LENGTHS                 (A) : 0.008                           
REMARK   3   BOND ANGLES            (DEGREES) : 1.400                           
REMARK   3   DIHEDRAL ANGLES        (DEGREES) : 23.40                           
REMARK   3   IMPROPER ANGLES        (DEGREES) : 1.020                           
REMARK   3                                                                      
REMARK   3  ISOTROPIC THERMAL MODEL : RESTRAINED                                
REMARK   3                                                                      
REMARK   3  ISOTROPIC THERMAL FACTOR RESTRAINTS.    RMS    SIGMA                
REMARK   3   MAIN-CHAIN BOND              (A**2) : 1.630 ; 1.500                
REMARK   3   MAIN-CHAIN ANGLE             (A**2) : 2.730 ; 2.000                
REMARK   3   SIDE-CHAIN BOND              (A**2) : 2.440 ; 2.000                
REMARK   3   SIDE-CHAIN ANGLE             (A**2) : 3.650 ; 2.500                
REMARK   3                                                                      
REMARK   3  BULK SOLVENT MODELING.                                              
REMARK   3   METHOD USED : FLAT MODEL                                           
REMARK   3   KSOL        : 0.31                                                 
REMARK   3   BSOL        : 25.84                                                
REMARK   3                                                                      
REMARK   3  NCS MODEL : NULL                                                    
REMARK   3                                                                      
REMARK   3  NCS RESTRAINTS.                         RMS   SIGMA/WEIGHT          
REMARK   3   GROUP  1  POSITIONAL            (A) : NULL  ; NULL                 
REMARK   3   GROUP  1  B-FACTOR           (A**2) : NULL  ; NULL                 
REMARK   3                                                                      
REMARK   3  PARAMETER FILE  1  : PROTEIN_REP.PA                                 
REMARK   3  PARAMETER FILE  2  : NULL                                           
REMARK   3  TOPOLOGY FILE  1   : PROTEIN.TOP                                    
REMARK   3  TOPOLOGY FILE  2   : NULL                                           
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: NULL                                      
REMARK   4                                                                      
REMARK   4 1QCQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-MAY-99.                  
REMARK 100 THE DEPOSITION ID IS D_1000009080.                                   
REMARK 200                                                                      
REMARK 200 EXPERIMENTAL DETAILS                                                 
REMARK 200  EXPERIMENT TYPE                : X-RAY DIFFRACTION                  
REMARK 200  DATE OF DATA COLLECTION        : 16-DEC-92; 17-DEC-92; 20-JAN-93;   
REMARK 200                                   22-JAN-93                          
REMARK 200  TEMPERATURE           (KELVIN) : 295.0; NULL; NULL; NULL            
REMARK 200  PH                             : 5.8                                
REMARK 200  NUMBER OF CRYSTALS USED        : 4                                  
REMARK 200                                                                      
REMARK 200  SYNCHROTRON              (Y/N) : N; N; N; N                         
REMARK 200  RADIATION SOURCE               : ROTATING ANODE; NULL; NULL; NULL   
REMARK 200  BEAMLINE                       : NULL; NULL; NULL; NULL             
REMARK 200  X-RAY GENERATOR MODEL          : RIGAKU RU300; NULL; NULL; NULL     
REMARK 200  MONOCHROMATIC OR LAUE    (M/L) : M; NULL; NULL; NULL                
REMARK 200  WAVELENGTH OR RANGE        (A) : 1.5418; NULL; NULL; NULL           
REMARK 200  MONOCHROMATOR                  : NULL; NULL; NULL; NULL             
REMARK 200  OPTICS                         : NULL; NULL; NULL; NULL             
REMARK 200                                                                      
REMARK 200  DETECTOR TYPE                  : AREA DETECTOR; AREA DETECTOR;      
REMARK 200                                   AREA DETECTOR; AREA DETECTOR       
REMARK 200  DETECTOR MANUFACTURER          : NICOLET; NICOLET; NICOLET;         
REMARK 200                                   NICOLET                            
REMARK 200  INTENSITY-INTEGRATION SOFTWARE : X-GEN                              
REMARK 200  DATA SCALING SOFTWARE          : X-GEN                              
REMARK 200                                                                      
REMARK 200  NUMBER OF UNIQUE REFLECTIONS   : 5940                               
REMARK 200  RESOLUTION RANGE HIGH      (A) : 2.700                              
REMARK 200  RESOLUTION RANGE LOW       (A) : 100.000                            
REMARK 200  REJECTION CRITERIA  (SIGMA(I)) : 0.000                              
REMARK 200                                                                      
REMARK 200 OVERALL.                                                             
REMARK 200  COMPLETENESS FOR RANGE     (%) : 97.0                               
REMARK 200  DATA REDUNDANCY                : 3.800                              
REMARK 200  R MERGE                    (I) : 0.13400                            
REMARK 200  R SYM                      (I) : NULL                               
REMARK 200  <I/SIGMA(I)> FOR THE DATA SET  : 10.2000                            
REMARK 200                                                                      
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.                                     
REMARK 200  HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70                     
REMARK 200  HIGHEST RESOLUTION SHELL, RANGE LOW  (A) : 2.87                     
REMARK 200  COMPLETENESS FOR SHELL     (%) : 87.0                               
REMARK 200  DATA REDUNDANCY IN SHELL       : 2.20                               
REMARK 200  R MERGE FOR SHELL          (I) : 0.36800                            
REMARK 200  R SYM FOR SHELL            (I) : NULL                               
REMARK 200  <I/SIGMA(I)> FOR SHELL         : NULL                               
REMARK 200                                                                      
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; NULL; NULL; NULL            
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL                         
REMARK 200 SOFTWARE USED: X-PLOR                                                
REMARK 200 STARTING MODEL: NULL                                                 
REMARK 200                                                                      
REMARK 200 REMARK: NULL                                                         
REMARK 280                                                                      
REMARK 280 CRYSTAL                                                              
REMARK 280 SOLVENT CONTENT, VS   (%): 60.51                                     
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.11                     
REMARK 280                                                                      
REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, MAGNESIUM ACETATE,             
REMARK 280  CACODYLATE, PH 5.8, VAPOR DIFFUSION, HANGING DROP                   
REMARK 290                                                                      
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY                                            
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2                        
REMARK 290                                                                      
REMARK 290      SYMOP   SYMMETRY                                                
REMARK 290     NNNMMM   OPERATOR                                                
REMARK 290       1555   X,Y,Z                                                   
REMARK 290       2555   -X,-Y,Z+1/2                                             
REMARK 290       3555   -Y+1/2,X+1/2,Z+1/4                                      
REMARK 290       4555   Y+1/2,-X+1/2,Z+3/4                                      
REMARK 290       5555   -X+1/2,Y+1/2,-Z+1/4                                     
REMARK 290       6555   X+1/2,-Y+1/2,-Z+3/4                                     
REMARK 290       7555   Y,X,-Z                                                  
REMARK 290       8555   -Y,-X,-Z+1/2                                            
REMARK 290                                                                      
REMARK 290     WHERE NNN -> OPERATOR NUMBER                                     
REMARK 290           MMM -> TRANSLATION VECTOR                                  
REMARK 290                                                                      
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS                            
REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM             
REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY                
REMARK 290 RELATED MOLECULES.                                                   
REMARK 290   SMTRY1   1  1.000000  0.000000  0.000000        0.00000            
REMARK 290   SMTRY2   1  0.000000  1.000000  0.000000        0.00000            
REMARK 290   SMTRY3   1  0.000000  0.000000  1.000000        0.00000            
REMARK 290   SMTRY1   2 -1.000000  0.000000  0.000000        0.00000            
REMARK 290   SMTRY2   2  0.000000 -1.000000  0.000000        0.00000            
REMARK 290   SMTRY3   2  0.000000  0.000000  1.000000       45.90000            
REMARK 290   SMTRY1   3  0.000000 -1.000000  0.000000       33.45000            
REMARK 290   SMTRY2   3  1.000000  0.000000  0.000000       33.45000            
REMARK 290   SMTRY3   3  0.000000  0.000000  1.000000       22.95000            
REMARK 290   SMTRY1   4  0.000000  1.000000  0.000000       33.45000            
REMARK 290   SMTRY2   4 -1.000000  0.000000  0.000000       33.45000            
REMARK 290   SMTRY3   4  0.000000  0.000000  1.000000       68.85000            
REMARK 290   SMTRY1   5 -1.000000  0.000000  0.000000       33.45000            
REMARK 290   SMTRY2   5  0.000000  1.000000  0.000000       33.45000            
REMARK 290   SMTRY3   5  0.000000  0.000000 -1.000000       22.95000            
REMARK 290   SMTRY1   6  1.000000  0.000000  0.000000       33.45000            
REMARK 290   SMTRY2   6  0.000000 -1.000000  0.000000       33.45000            
REMARK 290   SMTRY3   6  0.000000  0.000000 -1.000000       68.85000            
REMARK 290   SMTRY1   7  0.000000  1.000000  0.000000        0.00000            
REMARK 290   SMTRY2   7  1.000000  0.000000  0.000000        0.00000            
REMARK 290   SMTRY3   7  0.000000  0.000000 -1.000000        0.00000            
REMARK 290   SMTRY1   8  0.000000 -1.000000  0.000000        0.00000            
REMARK 290   SMTRY2   8 -1.000000  0.000000  0.000000        0.00000            
REMARK 290   SMTRY3   8  0.000000  0.000000 -1.000000       45.90000            
REMARK 290                                                                      
REMARK 290 REMARK: NULL                                                         
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: MONOMERIC                         
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A                                     
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: 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    GLU A  15       -8.41    -56.50                                   
REMARK 500    ARG A  16      -76.20   -113.41                                   
REMARK 500    THR A  20      -61.90    -93.12                                   
REMARK 500    SER A  23      115.45   -165.49                                   
REMARK 500    ASP A  43       44.60    -93.42                                   
REMARK 500    LYS A  91     -108.89   -142.45                                   
REMARK 500    ALA A 114     -177.88    -58.99                                   
REMARK 500    PRO A 119       76.46    -58.90                                   
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: 2UCE   RELATED DB: PDB                                   
REMARK 900 THIS ENTRY UPDATES 2UCE                                              
DBREF  1QCQ A    1   148  UNP    P15731   UBC4_YEAST       1    148             
SEQRES   1 A  148  MET SER SER SER LYS ARG ILE ALA LYS GLU LEU SER ASP          
SEQRES   2 A  148  LEU GLU ARG ASP PRO PRO THR SER CYS SER ALA GLY PRO          
SEQRES   3 A  148  VAL GLY ASP ASP LEU TYR HIS TRP GLN ALA SER ILE MET          
SEQRES   4 A  148  GLY PRO ALA ASP SER PRO TYR ALA GLY GLY VAL PHE PHE          
SEQRES   5 A  148  LEU SER ILE HIS PHE PRO THR ASP TYR PRO PHE LYS PRO          
SEQRES   6 A  148  PRO LYS ILE SER PHE THR THR LYS ILE TYR HIS PRO ASN          
SEQRES   7 A  148  ILE ASN ALA ASN GLY ASN ILE CYS LEU ASP ILE LEU LYS          
SEQRES   8 A  148  ASP GLN TRP SER PRO ALA LEU THR LEU SER LYS VAL LEU          
SEQRES   9 A  148  LEU SER ILE CYS SER LEU LEU THR ASP ALA ASN PRO ASP          
SEQRES  10 A  148  ASP PRO LEU VAL PRO GLU ILE ALA HIS ILE TYR LYS THR          
SEQRES  11 A  148  ASP ARG PRO LYS TYR GLU ALA THR ALA ARG GLU TRP THR          
SEQRES  12 A  148  LYS LYS TYR ALA VAL                                          
HELIX    1   1 MET A    1  ARG A   16  1                                  16    
HELIX    2   2 LEU A   87  LYS A   91  5                                   5    
HELIX    3   3 THR A   99  ASP A  113  1                                  15    
HELIX    4   4 VAL A  121  ASP A  131  1                                  11    
HELIX    5   5 ASP A  131  ALA A  147  1                                  17    
SHEET    1   A 4 CYS A  22  VAL A  27  0                                        
SHEET    2   A 4 ASP A  30  MET A  39 -1  N  ASP A  30   O  VAL A  27           
SHEET    3   A 4 VAL A  50  HIS A  56 -1  N  PHE A  51   O  ILE A  38           
SHEET    4   A 4 LYS A  67  PHE A  70 -1  N  LYS A  67   O  HIS A  56           
CISPEP   1 TYR A   61    PRO A   62          0         0.19                     
CRYST1   66.900   66.900   91.800  90.00  90.00  90.00 P 41 21 2     8          
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      0.014948  0.000000  0.000000        0.00000                         
SCALE2      0.000000  0.014948  0.000000        0.00000                         
SCALE3      0.000000  0.000000  0.010893        0.00000