HEADER    HYDROLASE                               16-MAY-08   2RPI              
TITLE     THE NMR STRUCTURE OF THE SUBMILLISECOND FOLDING INTERMEDIATE OF THE   
TITLE    2 THERMUS THERMOPHILUS RIBONUCLEASE H                                  
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: RIBONUCLEASE H;                                            
COMPND   3 CHAIN: A;                                                            
COMPND   4 SYNONYM: RNASE H;                                                    
COMPND   5 EC: 3.1.26.4;                                                        
COMPND   6 ENGINEERED: YES                                                      
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS HB8;                       
SOURCE   3 ORGANISM_TAXID: 300852;                                              
SOURCE   4 GENE: RNHA, TTHA1556;                                                
SOURCE   5 EXPRESSION_SYSTEM: ESCHERICHIA COLI;                                 
SOURCE   6 EXPRESSION_SYSTEM_TAXID: 562;                                        
SOURCE   7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;                              
SOURCE   8 EXPRESSION_SYSTEM_PLASMID: PET42B(+)                                 
KEYWDS    SUBMILLISECOND FOLDING INTERMEDIATE, THERMUS THERMOPHILUS             
KEYWDS   2 RIBONUCLEASE H, HIGH-RESOLUTION STRUCTURE, ENDONUCLEASE, HYDROLASE,  
KEYWDS   3 MAGNESIUM, METAL-BINDING, NUCLEASE                                   
EXPDTA    SOLUTION NMR                                                          
NUMMDL    10                                                                    
AUTHOR    Z.ZHOU,H.FENG,Y.BAI                                                   
REVDAT   3   29-MAY-24 2RPI    1       REMARK                                   
REVDAT   2   16-MAR-22 2RPI    1       REMARK SEQADV                            
REVDAT   1   31-MAR-09 2RPI    0                                                
JRNL        AUTH   Z.ZHOU,H.FENG,R.GHIRLANDO,Y.BAI                              
JRNL        TITL   THE HIGH-RESOLUTION NMR STRUCTURE OF THE EARLY FOLDING       
JRNL        TITL 2 INTERMEDIATE OF THE THERMUS THERMOPHILUS RIBONUCLEASE H      
JRNL        REF    J.MOL.BIOL.                   V. 384   531 2008              
JRNL        REFN                   ISSN 0022-2836                               
JRNL        PMID   18848567                                                     
JRNL        DOI    10.1016/J.JMB.2008.09.044                                    
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : NMRPIPE, X-PLOR NIH                                  
REMARK   3   AUTHORS     : DELAGLIO, ZHENGRONG AND BAX (NMRPIPE), SCHWIETERS,   
REMARK   3                 KUSZEWSKI, TJANDRA AND CLORE (X-PLOR NIH)            
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: NULL                                      
REMARK   4                                                                      
REMARK   4 2RPI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-MAY-08.                  
REMARK 100 THE DEPOSITION ID IS D_1000150128.                                   
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : 295                                
REMARK 210  PH                             : 5.2                                
REMARK 210  IONIC STRENGTH                 : 0.1                                
REMARK 210  PRESSURE                       : AMBIENT                            
REMARK 210  SAMPLE CONTENTS                : 1.0-1.2MM [U-100% 13C; U-100%      
REMARK 210                                   15N] PROTEIN, 100% D2O; 1.0-       
REMARK 210                                   1.2MM PROTEIN, 100% D2O; 1.0-      
REMARK 210                                   1.2MM [U-100% 13C] PROTEIN, 100%   
REMARK 210                                   D2O                                
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : 2D 1H-15N HSQC; 2D 1H-1H NOESY;    
REMARK 210                                   3D CBCA(CO)NH; 3D HNCACB; 3D       
REMARK 210                                   HNCO; 3D HN(CO)CA; 3D H(CCO)NH;    
REMARK 210                                   3D HNHA; 3D HCCH-TOCSY; 3D         
REMARK 210                                   HBHA(CO)NH; 3D 1H-15N NOESY; 3D    
REMARK 210                                   1H-13C NOESY; 3D HN(CA)NNH; 3D     
REMARK 210                                   HN(CA)CO                           
REMARK 210  SPECTROMETER FIELD STRENGTH    : 500 MHZ; 700 MHZ                   
REMARK 210  SPECTROMETER MODEL             : DRX                                
REMARK 210  SPECTROMETER MANUFACTURER      : BRUKER                             
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : NMRPIPE, NMRVIEW, TALOS, X-PLOR    
REMARK 210                                   NIH, PROCHECKNMR, MOLMOL           
REMARK 210   METHOD USED                   : DGSA-DISTANCE GEOMETRY SIMULATED   
REMARK 210                                   ANNEALING, TORSION ANGLE DYNAMICS  
REMARK 210                                                                      
REMARK 210 CONFORMERS, NUMBER CALCULATED   : 50                                 
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: 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 465                                                                      
REMARK 465 MISSING RESIDUES                                                     
REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE                       
REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER;                   
REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.)                            
REMARK 465   MODELS 1-10                                                        
REMARK 465     RES C SSSEQI                                                     
REMARK 465     HIS A   107                                                      
REMARK 465     HIS A   108                                                      
REMARK 465     HIS A   109                                                      
REMARK 465     HIS A   110                                                      
REMARK 465     HIS A   111                                                      
REMARK 465     HIS A   112                                                      
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   O    THR A    26     H    MET A    30              1.56            
REMARK 500   O    TRP A    88     H    LEU A    92              1.58            
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 ASN A   2      170.25     79.93                                   
REMARK 500  1 PRO A   3      157.03    -46.28                                   
REMARK 500  1 PRO A   5      -77.01    -52.43                                   
REMARK 500  1 ARG A   6      -62.50   -148.01                                   
REMARK 500  1 LYS A   7      104.41   -177.49                                   
REMARK 500  1 THR A  13       84.15    -65.05                                   
REMARK 500  1 ASP A  14       53.46   -115.05                                   
REMARK 500  1 ALA A  16      -55.66   -175.52                                   
REMARK 500  1 ALA A  17       86.90     77.40                                   
REMARK 500  1 LEU A  18       11.64   -178.45                                   
REMARK 500  1 THR A  25       -6.01    160.31                                   
REMARK 500  1 LEU A  42      -60.09   -121.25                                   
REMARK 500  1 PRO A  45      105.33    -41.23                                   
REMARK 500  1 ASP A  53       40.99    -94.91                                   
REMARK 500  1 TRP A  74       87.07     72.61                                   
REMARK 500  1 PRO A  81      158.73    -43.24                                   
REMARK 500  1 VAL A 100      111.93     -2.28                                   
REMARK 500  1 PHE A 104       97.72    -67.84                                   
REMARK 500  2 ASN A   2      160.79    162.13                                   
REMARK 500  2 PRO A   3      160.21    -48.31                                   
REMARK 500  2 PRO A   5      -71.54    -49.56                                   
REMARK 500  2 ARG A   6      -64.47   -157.44                                   
REMARK 500  2 LYS A   7      102.96   -174.65                                   
REMARK 500  2 THR A  13       84.98    -64.88                                   
REMARK 500  2 ASP A  14       50.84   -114.14                                   
REMARK 500  2 ALA A  16      -54.26   -173.26                                   
REMARK 500  2 ALA A  17       84.86     78.21                                   
REMARK 500  2 LEU A  18       13.66   -176.99                                   
REMARK 500  2 THR A  25        2.42    168.08                                   
REMARK 500  2 PRO A  45       98.32    -41.53                                   
REMARK 500  2 ASP A  53       42.41    -98.58                                   
REMARK 500  2 TRP A  74       86.05     77.65                                   
REMARK 500  2 PRO A  81      159.56    -39.97                                   
REMARK 500  2 VAL A 100      116.38     -4.30                                   
REMARK 500  3 ASN A   2      162.40    164.86                                   
REMARK 500  3 PRO A   3      172.87    -45.15                                   
REMARK 500  3 ARG A   6      -60.39   -159.63                                   
REMARK 500  3 LYS A   7      100.56   -176.75                                   
REMARK 500  3 THR A  13       81.09    -66.16                                   
REMARK 500  3 ASP A  14       54.98   -114.27                                   
REMARK 500  3 ALA A  16      -53.57   -176.34                                   
REMARK 500  3 ALA A  17       86.51     77.33                                   
REMARK 500  3 LEU A  18       13.50   -178.32                                   
REMARK 500  3 THR A  25        0.80    160.24                                   
REMARK 500  3 PRO A  45      105.43    -42.65                                   
REMARK 500  3 ASP A  53       40.60    -95.35                                   
REMARK 500  3 TRP A  74       87.95     73.05                                   
REMARK 500  3 PRO A  81      153.95    -49.22                                   
REMARK 500  3 VAL A 100      113.68     -3.02                                   
REMARK 500  3 PHE A 104       96.79    -68.24                                   
REMARK 500                                                                      
REMARK 500 THIS ENTRY HAS     175 RAMACHANDRAN OUTLIERS.                        
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: 1QF8   RELATED DB: PDB                                   
REMARK 999                                                                      
REMARK 999 SEQUENCE                                                             
REMARK 999 THE RESIDUES 25-45 IN THE DATABASE SEQUENCE                          
REMARK 999 (RNH_THET8 P29253) WERE DELETED                                      
REMARK 999 SINCE THIS IS THE INTERMEDIATE STATE OF THE PROTEIN.                 
REMARK 999 IN THIS INTERMEDIATE STATE, IT EXCLUDES THE RESIDUES 25-45,          
REMARK 999 BUT STILL FOLDS WELL.                                                
REMARK 999 ABOUT RESIDUE 17, 67, THESE CONFLICTS ARE BASED ON                   
REMARK 999 FOLDING, THERMAL STABILITY AND EXPRESSION.                           
DBREF  2RPI A    1    24  UNP    P29253   RNH_THET8        1     24             
DBREF  2RPI A   25   106  UNP    P29253   RNH_THET8       46    127             
SEQADV 2RPI ALA A   17  UNP  P29253    CYS    17 SEE REMARK 999                 
SEQADV 2RPI ALA A   46  UNP  P29253    CYS    67 SEE REMARK 999                 
SEQADV 2RPI HIS A  107  UNP  P29253              EXPRESSION TAG                 
SEQADV 2RPI HIS A  108  UNP  P29253              EXPRESSION TAG                 
SEQADV 2RPI HIS A  109  UNP  P29253              EXPRESSION TAG                 
SEQADV 2RPI HIS A  110  UNP  P29253              EXPRESSION TAG                 
SEQADV 2RPI HIS A  111  UNP  P29253              EXPRESSION TAG                 
SEQADV 2RPI HIS A  112  UNP  P29253              EXPRESSION TAG                 
SEQRES   1 A  112  MET ASN PRO SER PRO ARG LYS ARG VAL ALA LEU PHE THR          
SEQRES   2 A  112  ASP GLY ALA ALA LEU GLY ASN PRO GLY PRO GLY THR THR          
SEQRES   3 A  112  ASN ASN ARG MET GLU LEU LYS ALA ALA ILE GLU GLY LEU          
SEQRES   4 A  112  LYS ALA LEU LYS GLU PRO ALA GLU VAL ASP LEU TYR THR          
SEQRES   5 A  112  ASP SER HIS TYR LEU LYS LYS ALA PHE THR GLU GLY TRP          
SEQRES   6 A  112  LEU GLU GLY TRP ARG LYS ARG GLY TRP ARG THR ALA GLU          
SEQRES   7 A  112  GLY LYS PRO VAL LYS ASN ARG ASP LEU TRP GLU ALA LEU          
SEQRES   8 A  112  LEU LEU ALA MET ALA PRO HIS ARG VAL ARG PHE HIS PHE          
SEQRES   9 A  112  VAL LYS HIS HIS HIS HIS HIS HIS                              
HELIX    1   1 THR A   25  ALA A   41  1                                  17    
HELIX    2   2 TYR A   56  GLU A   63  1                                   8    
HELIX    3   3 TRP A   65  ARG A   72  1                                   8    
HELIX    4   4 ASN A   84  MET A   95  1                                  12    
SHEET    1   A 2 ASP A  49  TYR A  51  0                                        
SHEET    2   A 2 ARG A 101  HIS A 103  1  O  HIS A 103   N  LEU A  50           
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