PDB Short entry for 1FXT
HEADER    LIGASE                                  26-SEP-00   1FXT              
TITLE     STRUCTURE OF A CONJUGATING ENZYME-UBIQUITIN THIOLESTER                
TITLE    2 COMPLEX                                                              
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: UBIQUITIN-CONJUGATING ENZYME E2-24 KDA;                    
COMPND   3 CHAIN: A;                                                            
COMPND   4 EC: 6.3.2.19;                                                        
COMPND   5 ENGINEERED: YES;                                                     
COMPND   6 MOL_ID: 2;                                                           
COMPND   7 MOLECULE: UBIQUITIN;                                                 
COMPND   8 CHAIN: B;                                                            
COMPND   9 ENGINEERED: YES                                                      
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE;                       
SOURCE   3 ORGANISM_COMMON: BAKER'S YEAST;                                      
SOURCE   4 ORGANISM_TAXID: 4932;                                                
SOURCE   5 EXPRESSION_SYSTEM: ESCHERICHIA COLI;                                 
SOURCE   6 EXPRESSION_SYSTEM_TAXID: 562;                                        
SOURCE   7 EXPRESSION_SYSTEM_PLASMID: PET3A;                                    
SOURCE   8 MOL_ID: 2;                                                           
SOURCE   9 ORGANISM_SCIENTIFIC: HOMO SAPIENS;                                   
SOURCE  10 ORGANISM_COMMON: HUMAN;                                              
SOURCE  11 ORGANISM_TAXID: 9606;                                                
SOURCE  12 EXPRESSION_SYSTEM: ESCHERICHIA COLI;                                 
SOURCE  13 EXPRESSION_SYSTEM_TAXID: 562;                                        
SOURCE  14 EXPRESSION_SYSTEM_PLASMID: PET3A-HUB                                 
KEYWDS    MODEL OF THE INTERACTION BETWEEN YEAST UBC1 AND UBIQUITIN             
KEYWDS   2 AFTER THE FORMATION OF A COVALENT THIOLESTER, LIGASE                 
EXPDTA    SOLUTION NMR                                                          
AUTHOR    K.S.HAMILTON,G.S.SHAW,R.S.WILLIAMS,J.T.HUZIL,S.MCKENNA,               
AUTHOR   2 C.PTAK,M.GLOVER,M.J.ELLISON                                          
REVDAT   2   24-FEB-09 1FXT    1       VERSN                                    
REVDAT   1   10-OCT-01 1FXT    0                                                
JRNL        AUTH   K.S.HAMILTON,M.J.ELLISON,K.R.BARBER,R.S.WILLIAMS,            
JRNL        AUTH 2 J.T.HUZIL,S.MCKENNA,C.PTAK,M.GLOVER,G.S.SHAW                 
JRNL        TITL   STRUCTURE OF A CONJUGATING ENZYME-UBIQUITIN                  
JRNL        TITL 2 THIOLESTER INTERMEDIATE REVEALS A NOVEL ROLE FOR             
JRNL        TITL 3 THE UBIQUITIN TAIL.                                          
JRNL        REF    STRUCTURE                     V.   9   897 2001              
JRNL        REFN                   ISSN 0969-2126                               
JRNL        PMID   11591345                                                     
JRNL        DOI    10.1016/S0969-2126(01)00657-8                                
REMARK   1                                                                      
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : NULL                                                 
REMARK   3   AUTHORS     : NULL                                                 
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: NULL                                      
REMARK   4                                                                      
REMARK   4 1FXT COMPLIES WITH FORMAT V. 3.15, 01-DEC-08                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-OCT-00.                  
REMARK 100 THE RCSB ID CODE IS RCSB011993.                                      
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : 30                                 
REMARK 210  PH                             : 7.5                                
REMARK 210  IONIC STRENGTH                 : 450MM NACL                         
REMARK 210  PRESSURE                       : AMBIENT                            
REMARK 210  SAMPLE CONTENTS                : YEAST UBC1; HUMAN UB               
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : ENHANCED 1H-15N HSQC               
REMARK 210  SPECTROMETER FIELD STRENGTH    : 500 MHZ                            
REMARK 210  SPECTROMETER MODEL             : UNITY                              
REMARK 210  SPECTROMETER MANUFACTURER      : VARIAN                             
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : NMRDRAW 1, PIPP 1, STAPP 1         
REMARK 210   METHOD USED                   : DYNAMIC DOCKING BETWEEN UBC1       
REMARK 210                                   AND UB SYSTEM COVALENTLY BOUND     
REMARK 210                                   AND MINIMIZED                      
REMARK 210                                                                      
REMARK 210 CONFORMERS, NUMBER CALCULATED   : 1                                  
REMARK 210 CONFORMERS, NUMBER SUBMITTED    : 1                                  
REMARK 210 CONFORMERS, SELECTION CRITERIA  : NULL                               
REMARK 210                                                                      
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1                   
REMARK 210                                                                      
REMARK 210 REMARK: SPECTRA OF THIOLESTER FORMATION WERE  ACQUIRED EVERY 10      
REMARK 210  MINUTES DURING THE FIRST 60 MINUTES OF REACTION TIME UNTIL A        
REMARK 210  STABLE LEVEL OF COVALENT COMPLEX WAS FORMED                         
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: 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   SG   CYS A    88     C    GLY B    76              1.79            
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS                                      
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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3)               
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   RES CSSEQI ATM2   DEVIATION                     
REMARK 500    HIS A  21   CG    HIS A  21   CD2     0.057                       
REMARK 500    HIS A  34   CG    HIS A  34   CD2     0.055                       
REMARK 500    SER A 150   C     SER A 150   OXT     0.136                       
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
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    ARG A   3   NE  -  CZ  -  NH1 ANGL. DEV. =   3.5 DEGREES          
REMARK 500    ARG A   6   NE  -  CZ  -  NH1 ANGL. DEV. =   3.9 DEGREES          
REMARK 500    HIS A  21   ND1 -  CE1 -  NE2 ANGL. DEV. =   8.5 DEGREES          
REMARK 500    HIS A  33   ND1 -  CE1 -  NE2 ANGL. DEV. =   8.6 DEGREES          
REMARK 500    HIS A  34   ND1 -  CE1 -  NE2 ANGL. DEV. =   8.5 DEGREES          
REMARK 500    HIS A  77   ND1 -  CE1 -  NE2 ANGL. DEV. =   8.6 DEGREES          
REMARK 500    HIS A 129   ND1 -  CE1 -  NE2 ANGL. DEV. =   8.0 DEGREES          
REMARK 500    ARG A 132   NE  -  CZ  -  NH1 ANGL. DEV. =   4.6 DEGREES          
REMARK 500    ARG A 134   NE  -  CZ  -  NH1 ANGL. DEV. =   3.5 DEGREES          
REMARK 500    ARG A 146   NE  -  CZ  -  NH1 ANGL. DEV. =   3.2 DEGREES          
REMARK 500    ARG B  42   NE  -  CZ  -  NH1 ANGL. DEV. =   4.5 DEGREES          
REMARK 500    ARG B  54   NE  -  CZ  -  NH1 ANGL. DEV. =   3.6 DEGREES          
REMARK 500    ARG B  54   NE  -  CZ  -  NH2 ANGL. DEV. =  -3.1 DEGREES          
REMARK 500    HIS B  68   ND1 -  CE1 -  NE2 ANGL. DEV. =   8.6 DEGREES          
REMARK 500    ARG B  72   NE  -  CZ  -  NH1 ANGL. DEV. =   3.8 DEGREES          
REMARK 500    ARG B  74   NE  -  CZ  -  NH1 ANGL. DEV. =   4.7 DEGREES          
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    LYS A   5       43.61    -84.34                                   
REMARK 500    ARG A   6      -66.92   -142.92                                   
REMARK 500    LEU A  24       79.90   -100.34                                   
REMARK 500    SER A  28      -93.39    -81.13                                   
REMARK 500    GLU A  29      -73.45   -136.82                                   
REMARK 500    ASP A  31     -142.47    -83.89                                   
REMARK 500    HIS A  33      -57.65   -159.20                                   
REMARK 500    THR A  45      149.24   -173.93                                   
REMARK 500    PRO A  46      -10.46    -47.08                                   
REMARK 500    ASN A  94      -63.22   -120.30                                   
REMARK 500    ASN A 119      -59.09   -126.73                                   
REMARK 500    GLN A 122      -89.52   -105.77                                   
REMARK 500    ARG A 134       42.86   -141.90                                   
REMARK 500    GLU A 135      -60.57   -140.85                                   
REMARK 500    LEU A 147      -65.02    -90.82                                   
REMARK 500    LEU B   8       57.85    -96.01                                   
REMARK 500    THR B   9      -33.65   -137.46                                   
REMARK 500    PRO B  19      -18.35    -49.53                                   
REMARK 500    ASP B  32      -85.48    -51.79                                   
REMARK 500    ALA B  46       86.72     51.41                                   
REMARK 500    LEU B  73     -136.12    -90.00                                   
REMARK 500    ARG B  74       60.01   -152.70                                   
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS                                         
REMARK 500                                                                      
REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH          
REMARK 500 CIS AND TRANS CONFORMATION.  CIS BONDS, IF ANY, ARE LISTED           
REMARK 500 ON CISPEP RECORDS.  TRANS IS DEFINED AS 180 +/- 30 AND               
REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES.                                  
REMARK 500                                 MODEL     OMEGA                      
REMARK 500 TYR A   62     PRO A   63                   33.01                    
REMARK 500 ASP A  133     ARG A  134                  149.47                    
REMARK 500 VAL B   17     GLU B   18                  147.08                    
REMARK 500 ILE B   23     GLU B   24                  144.49                    
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 500                                                                      
REMARK 500 GEOMETRY AND STEREOCHEMISTRY                                         
REMARK 500 SUBTOPIC: PLANAR GROUPS                                              
REMARK 500                                                                      
REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL                 
REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE                    
REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN                    
REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS                        
REMARK 500 AN RMSD GREATER THAN THIS VALUE                                      
REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;               
REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).                             
REMARK 500                                                                      
REMARK 500  M RES CSSEQI        RMS     TYPE                                    
REMARK 500    TYR A  47         0.08    SIDE_CHAIN                              
REMARK 500    ARG B  42         0.08    SIDE_CHAIN                              
REMARK 500    ARG B  72         0.09    SIDE_CHAIN                              
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
DBREF  1FXT A    2   150  UNP    P21734   UBC1_YEAST       2    150             
DBREF  1FXT B    1    76  UNP    P62988   UBIQ_HUMAN       1     76             
SEQRES   1 A  149  SER ARG ALA LYS ARG ILE MET LYS GLU ILE GLN ALA VAL          
SEQRES   2 A  149  LYS ASP ASP PRO ALA ALA HIS ILE THR LEU GLU PHE VAL          
SEQRES   3 A  149  SER GLU SER ASP ILE HIS HIS LEU LYS GLY THR PHE LEU          
SEQRES   4 A  149  GLY PRO PRO GLY THR PRO TYR GLU GLY GLY LYS PHE VAL          
SEQRES   5 A  149  VAL ASP ILE GLU VAL PRO MET GLU TYR PRO PHE LYS PRO          
SEQRES   6 A  149  PRO LYS MET GLN PHE ASP THR LYS VAL TYR HIS PRO ASN          
SEQRES   7 A  149  ILE SER SER VAL THR GLY ALA ILE CYS LEU ASP ILE LEU          
SEQRES   8 A  149  LYS ASN ALA TRP SER PRO VAL ILE THR LEU LYS SER ALA          
SEQRES   9 A  149  LEU ILE SER LEU GLN ALA LEU LEU GLN SER PRO GLU PRO          
SEQRES  10 A  149  ASN ASP PRO GLN ASP ALA GLU VAL ALA GLN HIS TYR LEU          
SEQRES  11 A  149  ARG ASP ARG GLU SER PHE ASN LYS THR ALA ALA LEU TRP          
SEQRES  12 A  149  THR ARG LEU TYR ALA SER                                      
SEQRES   1 B   76  MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE          
SEQRES   2 B   76  THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL          
SEQRES   3 B   76  LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP          
SEQRES   4 B   76  GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP          
SEQRES   5 B   76  GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER          
SEQRES   6 B   76  THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY                  
HELIX    1   1 ARG A    3  ASP A   17  1                                  15    
HELIX    2   2 PRO A   18  HIS A   21  5                                   4    
HELIX    3   3 LEU A   89  ASN A   94  1                                   6    
HELIX    4   4 THR A  101  SER A  115  1                                  15    
HELIX    5   5 ASP A  123  ASP A  133  1                                  11    
HELIX    6   6 GLU A  135  ALA A  149  1                                  15    
HELIX    7   7 THR B   22  GLU B   34  1                                  13    
HELIX    8   8 LEU B   56  ASN B   60  5                                   5    
SHEET    1   A 4 THR A  23  PHE A  26  0                                        
SHEET    2   A 4 HIS A  34  LEU A  40 -1  N  LYS A  36   O  GLU A  25           
SHEET    3   A 4 LYS A  51  GLU A  57 -1  N  PHE A  52   O  PHE A  39           
SHEET    4   A 4 LYS A  68  PHE A  71 -1  N  LYS A  68   O  GLU A  57           
SHEET    1   B 4 ILE B  13  GLU B  16  0                                        
SHEET    2   B 4 GLN B   2  LYS B   6 -1  O  ILE B   3   N  LEU B  15           
SHEET    3   B 4 THR B  66  LEU B  71  1  O  LEU B  67   N  LYS B   6           
SHEET    4   B 4 GLN B  41  ILE B  44 -1  O  ARG B  42   N  VAL B  70           
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