HEADER    TRANSFERASE                             06-MAY-09   3HCX              
TITLE     CRYSTAL STRUCTURE OF E. COLI HPPK(N10A)                               
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: 2-AMINO-4-HYDROXY-6-HYDROXYMETHYLDIHYDROPTERIDINE          
COMPND   3 PYROPHOSPHOKINASE;                                                   
COMPND   4 CHAIN: A;                                                            
COMPND   5 SYNONYM: 7,8-DIHYDRO-6-HYDROXYMETHYLPTERIN-PYROPHOSPHOKINASE, HPPK,  
COMPND   6 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE, PPPK;           
COMPND   7 EC: 2.7.6.3;                                                         
COMPND   8 ENGINEERED: YES;                                                     
COMPND   9 MUTATION: YES                                                        
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12;                          
SOURCE   3 ORGANISM_TAXID: 83333;                                               
SOURCE   4 GENE: B0142, FOIK, FOLK, JW0138;                                     
SOURCE   5 EXPRESSION_SYSTEM: ESCHERICHIA COLI;                                 
SOURCE   6 EXPRESSION_SYSTEM_TAXID: 562;                                        
SOURCE   7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3);                                 
SOURCE   8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;                              
SOURCE   9 EXPRESSION_SYSTEM_PLASMID: PET17B                                    
KEYWDS    ALPHA BETA, ATP-BINDING, FOLATE BIOSYNTHESIS, KINASE, NUCLEOTIDE-     
KEYWDS   2 BINDING, TRANSFERASE                                                 
EXPDTA    X-RAY DIFFRACTION                                                     
AUTHOR    J.BLASZCZYK,Y.LI,H.YAN,X.JI                                           
REVDAT   5   06-SEP-23 3HCX    1       REMARK                                   
REVDAT   4   30-AUG-23 3HCX    1       AUTHOR JRNL                              
REVDAT   3   13-OCT-21 3HCX    1       REMARK SEQADV                            
REVDAT   2   01-NOV-17 3HCX    1       REMARK                                   
REVDAT   1   19-MAY-10 3HCX    0                                                
JRNL        AUTH   J.BLASZCZYK,Y.LI,X.JI,H.YAN                                  
JRNL        TITL   ROLE OF LOOP COUPLING IN ENZYMATIC CATALYSIS AND             
JRNL        TITL 2 CONFORMATIONAL DYNAMICS                                      
JRNL        REF    TO BE PUBLISHED                                              
JRNL        REFN                                                                
REMARK   1                                                                      
REMARK   1 REFERENCE 1                                                          
REMARK   1  AUTH   B.XIAO,G.SHI,X.CHEN,H.YAN,X.JI                               
REMARK   1  TITL   CRYSTAL STRUCTURE OF 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN       
REMARK   1  TITL 2 PYROPHOSPHOKINASE, A POTENTIAL TARGET FOR THE DEVELOPMENT OF 
REMARK   1  TITL 3 NOVEL ANTIMICROBIAL AGENTS.                                  
REMARK   1  REF    STRUCTURE                     V.   7   489 1999              
REMARK   1  REFN                   ISSN 0969-2126                               
REMARK   1  PMID   10378268                                                     
REMARK   2                                                                      
REMARK   2 RESOLUTION.    1.75 ANGSTROMS.                                       
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : PHENIX                                               
REMARK   3   AUTHORS     : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN            
REMARK   3               : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE,           
REMARK   3               : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER,            
REMARK   3               : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY,              
REMARK   3               : REETAL PAI,RANDY READ,JANE RICHARDSON,               
REMARK   3               : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI,           
REMARK   3               : NICHOLAS SAUTER,JACOB SMITH,LAURENT                  
REMARK   3               : STORONI,TOM TERWILLIGER,PETER ZWART                  
REMARK   3                                                                      
REMARK   3    REFINEMENT TARGET : ML                                            
REMARK   3                                                                      
REMARK   3  DATA USED IN REFINEMENT.                                            
REMARK   3   RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75                           
REMARK   3   RESOLUTION RANGE LOW  (ANGSTROMS) : 19.52                          
REMARK   3   MIN(FOBS/SIGMA_FOBS)              : 1.350                          
REMARK   3   COMPLETENESS FOR RANGE        (%) : 99.8                           
REMARK   3   NUMBER OF REFLECTIONS             : 14654                          
REMARK   3                                                                      
REMARK   3  FIT TO DATA USED IN REFINEMENT.                                     
REMARK   3   R VALUE     (WORKING + TEST SET) : 0.186                           
REMARK   3   R VALUE            (WORKING SET) : 0.184                           
REMARK   3   FREE R VALUE                     : 0.220                           
REMARK   3   FREE R VALUE TEST SET SIZE   (%) : 6.820                           
REMARK   3   FREE R VALUE TEST SET COUNT      : 1000                            
REMARK   3                                                                      
REMARK   3  FIT TO DATA USED IN REFINEMENT (IN BINS).                           
REMARK   3   BIN  RESOLUTION RANGE  COMPL.    NWORK NFREE   RWORK  RFREE        
REMARK   3     1 19.5250 -  3.3440    0.99     1984   145  0.1680 0.1700        
REMARK   3     2  3.3440 -  2.6560    1.00     1959   144  0.1800 0.2400        
REMARK   3     3  2.6560 -  2.3210    1.00     1961   143  0.1860 0.2490        
REMARK   3     4  2.3210 -  2.1090    1.00     1952   144  0.1810 0.2090        
REMARK   3     5  2.1090 -  1.9580    1.00     1924   141  0.1960 0.2850        
REMARK   3     6  1.9580 -  1.8430    1.00     1956   143  0.2180 0.2660        
REMARK   3     7  1.8430 -  1.7500    1.00     1918   140  0.2520 0.2850        
REMARK   3                                                                      
REMARK   3  BULK SOLVENT MODELLING.                                             
REMARK   3   METHOD USED        : FLAT BULK SOLVENT MODEL                       
REMARK   3   SOLVENT RADIUS     : 1.11                                          
REMARK   3   SHRINKAGE RADIUS   : 0.90                                          
REMARK   3   K_SOL              : 0.35                                          
REMARK   3   B_SOL              : 61.83                                         
REMARK   3                                                                      
REMARK   3  ERROR ESTIMATES.                                                    
REMARK   3   COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED)     : 0.270            
REMARK   3   PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL             
REMARK   3                                                                      
REMARK   3  B VALUES.                                                           
REMARK   3   FROM WILSON PLOT           (A**2) : 27.40                          
REMARK   3   MEAN B VALUE      (OVERALL, A**2) : 29.04                          
REMARK   3   OVERALL ANISOTROPIC B VALUE.                                       
REMARK   3    B11 (A**2) : 0.62600                                              
REMARK   3    B22 (A**2) : -3.60500                                             
REMARK   3    B33 (A**2) : 2.97900                                              
REMARK   3    B12 (A**2) : 0.00000                                              
REMARK   3    B13 (A**2) : 1.83700                                              
REMARK   3    B23 (A**2) : 0.00000                                              
REMARK   3                                                                      
REMARK   3  TWINNING INFORMATION.                                               
REMARK   3   FRACTION: NULL                                                     
REMARK   3   OPERATOR: NULL                                                     
REMARK   3                                                                      
REMARK   3  DEVIATIONS FROM IDEAL VALUES.                                       
REMARK   3                 RMSD          COUNT                                  
REMARK   3   BOND      :  0.007           1366                                  
REMARK   3   ANGLE     :  1.054           1865                                  
REMARK   3   CHIRALITY :  0.075            208                                  
REMARK   3   PLANARITY :  0.005            245                                  
REMARK   3   DIHEDRAL  : 18.148            510                                  
REMARK   3                                                                      
REMARK   3  TLS DETAILS                                                         
REMARK   3   NUMBER OF TLS GROUPS  : NULL                                       
REMARK   3                                                                      
REMARK   3  NCS DETAILS                                                         
REMARK   3   NUMBER OF NCS GROUPS : NULL                                        
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: THE STRUCTURE WAS REFINED FOR A TOTAL     
REMARK   3  OF 24 CYCLES, INCLUDING 8 CYCLES WITH CNS, 7 CYCLES WITH SHELX,     
REMARK   3  AND 9 CYCLES WITH PHENIX                                            
REMARK   4                                                                      
REMARK   4 3HCX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAY-09.                  
REMARK 100 THE DEPOSITION ID IS D_1000052980.                                   
REMARK 200                                                                      
REMARK 200 EXPERIMENTAL DETAILS                                                 
REMARK 200  EXPERIMENT TYPE                : X-RAY DIFFRACTION                  
REMARK 200  DATE OF DATA COLLECTION        : 06-NOV-99                          
REMARK 200  TEMPERATURE           (KELVIN) : 100                                
REMARK 200  PH                             : 8.5                                
REMARK 200  NUMBER OF CRYSTALS USED        : 1                                  
REMARK 200                                                                      
REMARK 200  SYNCHROTRON              (Y/N) : Y                                  
REMARK 200  RADIATION SOURCE               : NSLS                               
REMARK 200  BEAMLINE                       : X9B                                
REMARK 200  X-RAY GENERATOR MODEL          : NULL                               
REMARK 200  MONOCHROMATIC OR LAUE    (M/L) : M                                  
REMARK 200  WAVELENGTH OR RANGE        (A) : 0.91700                            
REMARK 200  MONOCHROMATOR                  : SILICON 111                        
REMARK 200  OPTICS                         : MIRRORS                            
REMARK 200                                                                      
REMARK 200  DETECTOR TYPE                  : CCD                                
REMARK 200  DETECTOR MANUFACTURER          : ADSC QUANTUM 4                     
REMARK 200  INTENSITY-INTEGRATION SOFTWARE : DENZO                              
REMARK 200  DATA SCALING SOFTWARE          : SCALEPACK                          
REMARK 200                                                                      
REMARK 200  NUMBER OF UNIQUE REFLECTIONS   : 14669                              
REMARK 200  RESOLUTION RANGE HIGH      (A) : 1.750                              
REMARK 200  RESOLUTION RANGE LOW       (A) : 30.000                             
REMARK 200  REJECTION CRITERIA  (SIGMA(I)) : -3.000                             
REMARK 200                                                                      
REMARK 200 OVERALL.                                                             
REMARK 200  COMPLETENESS FOR RANGE     (%) : 99.8                               
REMARK 200  DATA REDUNDANCY                : 3.600                              
REMARK 200  R MERGE                    (I) : 0.04700                            
REMARK 200  R SYM                      (I) : NULL                               
REMARK 200  <I/SIGMA(I)> FOR THE DATA SET  : 24.5710                            
REMARK 200                                                                      
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.                                     
REMARK 200  HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75                     
REMARK 200  HIGHEST RESOLUTION SHELL, RANGE LOW  (A) : 1.81                     
REMARK 200  COMPLETENESS FOR SHELL     (%) : 99.7                               
REMARK 200  DATA REDUNDANCY IN SHELL       : 3.30                               
REMARK 200  R MERGE FOR SHELL          (I) : 0.60300                            
REMARK 200  R SYM FOR SHELL            (I) : NULL                               
REMARK 200  <I/SIGMA(I)> FOR SHELL         : 1.920                              
REMARK 200                                                                      
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH                              
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS            
REMARK 200 SOFTWARE USED: CNS                                                   
REMARK 200 STARTING MODEL: PDB ENTRY 1HKA                                       
REMARK 200                                                                      
REMARK 200 REMARK: NULL                                                         
REMARK 280                                                                      
REMARK 280 CRYSTAL                                                              
REMARK 280 SOLVENT CONTENT, VS   (%): 39.92                                     
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05                     
REMARK 280                                                                      
REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, SODIUM ACETATE, GLYCEROL,      
REMARK 280  TRIS-HCL, PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292K   
REMARK 290                                                                      
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY                                            
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1                         
REMARK 290                                                                      
REMARK 290      SYMOP   SYMMETRY                                                
REMARK 290     NNNMMM   OPERATOR                                                
REMARK 290       1555   X,Y,Z                                                   
REMARK 290       2555   -X,Y+1/2,-Z                                             
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       25.87000            
REMARK 290   SMTRY3   2  0.000000  0.000000 -1.000000        0.00000            
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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC                  
REMARK 350 SOFTWARE USED: PISA                                                  
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    SER A   9      129.65   -175.39                                   
REMARK 500    ALA A  12     -121.43     49.47                                   
REMARK 500    ALA A  12      119.12    -27.95                                   
REMARK 500    ASP A  49       77.43     62.55                                   
REMARK 500    GLU A  87       64.16   -150.43                                   
REMARK 500    ALA A 132       64.19   -150.55                                   
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 800                                                                      
REMARK 800 SITE                                                                 
REMARK 800 SITE_IDENTIFIER: AC1                                                 
REMARK 800 EVIDENCE_CODE: SOFTWARE                                              
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 191                  
REMARK 800                                                                      
REMARK 800 SITE_IDENTIFIER: AC2                                                 
REMARK 800 EVIDENCE_CODE: SOFTWARE                                              
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 192                 
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: 1HKA   RELATED DB: PDB                                   
REMARK 900 CRYSTAL STRUCTURE OF E. COLI HPPK                                    
REMARK 900 RELATED ID: 3HD1   RELATED DB: PDB                                   
REMARK 900 RELATED ID: 3HD2   RELATED DB: PDB                                   
DBREF  3HCX A    1   158  UNP    P26281   HPPK_ECOLI       2    159             
SEQADV 3HCX ALA A   10  UNP  P26281    ASN    11 ENGINEERED MUTATION            
SEQRES   1 A  158  THR VAL ALA TYR ILE ALA ILE GLY SER ALA LEU ALA SER          
SEQRES   2 A  158  PRO LEU GLU GLN VAL ASN ALA ALA LEU LYS ALA LEU GLY          
SEQRES   3 A  158  ASP ILE PRO GLU SER HIS ILE LEU THR VAL SER SER PHE          
SEQRES   4 A  158  TYR ARG THR PRO PRO LEU GLY PRO GLN ASP GLN PRO ASP          
SEQRES   5 A  158  TYR LEU ASN ALA ALA VAL ALA LEU GLU THR SER LEU ALA          
SEQRES   6 A  158  PRO GLU GLU LEU LEU ASN HIS THR GLN ARG ILE GLU LEU          
SEQRES   7 A  158  GLN GLN GLY ARG VAL ARG LYS ALA GLU ARG TRP GLY PRO          
SEQRES   8 A  158  ARG THR LEU ASP LEU ASP ILE MET LEU PHE GLY ASN GLU          
SEQRES   9 A  158  VAL ILE ASN THR GLU ARG LEU THR VAL PRO HIS TYR ASP          
SEQRES  10 A  158  MET LYS ASN ARG GLY PHE MET LEU TRP PRO LEU PHE GLU          
SEQRES  11 A  158  ILE ALA PRO GLU LEU VAL PHE PRO ASP GLY GLU MET LEU          
SEQRES  12 A  158  ARG GLN ILE LEU HIS THR ARG ALA PHE ASP LYS LEU ASN          
SEQRES  13 A  158  LYS TRP                                                      
HET     CL  A 191       1                                                       
HET    TRS  A 192       8                                                       
HETNAM      CL CHLORIDE ION                                                     
HETNAM     TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL                         
HETSYN     TRS TRIS BUFFER                                                      
FORMUL   2   CL    CL 1-                                                        
FORMUL   3  TRS    C4 H12 N O3 1+                                               
FORMUL   4  HOH   *169(H2 O)                                                    
HELIX    1   1 SER A   13  ASP A   27  1                                  15    
HELIX    2   2 ALA A   65  GLY A   81  1                                  17    
HELIX    3   3 ASP A  117  ASN A  120  5                                   4    
HELIX    4   4 ARG A  121  ALA A  132  1                                  12    
HELIX    5   5 MET A  142  ALA A  151  1                                  10    
SHEET    1   A 4 SER A  31  VAL A  36  0                                        
SHEET    2   A 4 TYR A  53  THR A  62 -1  O  ALA A  59   N  LEU A  34           
SHEET    3   A 4 VAL A   2  SER A   9 -1  N  ALA A   3   O  LEU A  60           
SHEET    4   A 4 LEU A  94  PHE A 101 -1  O  ASP A  97   N  ALA A   6           
SHEET    1   B 4 SER A  31  VAL A  36  0                                        
SHEET    2   B 4 TYR A  53  THR A  62 -1  O  ALA A  59   N  LEU A  34           
SHEET    3   B 4 TYR A  40  THR A  42 -1  N  TYR A  40   O  ASN A  55           
SHEET    4   B 4 ASN A 156  LYS A 157 -1  O  ASN A 156   N  ARG A  41           
SHEET    1   C 2 ILE A 106  ASN A 107  0                                        
SHEET    2   C 2 THR A 112  VAL A 113 -1  O  VAL A 113   N  ILE A 106           
CISPEP   1 VAL A  113    PRO A  114          0        -2.79                     
SITE     1 AC1  5 PRO A 114  LYS A 119  PRO A 138  ASP A 139                    
SITE     2 AC1  5 HOH A 319                                                     
SITE     1 AC2  9 ASP A  97  ILE A  98  ARG A 110  LEU A 111                    
SITE     2 AC2  9 THR A 112  HOH A 204  HOH A 227  HOH A 229                    
SITE     3 AC2  9 HOH A 230                                                     
CRYST1   36.330   51.740   41.390  90.00 109.38  90.00 P 1 21 1      2          
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      0.027528  0.000000  0.009686        0.00000                         
SCALE2      0.000000  0.019327  0.000000        0.00000                         
SCALE3      0.000000  0.000000  0.025610        0.00000