HEADER    DNA-RNA HYBRID                          11-FEB-97   1AC3              
TITLE     SOLUTION STRUCTURE OF AN RNA-DNA HYBRID DUPLEX CONTAINING A 3'-       
TITLE    2 THIOFORMACETAL LINKER AND AN RNA A-TRACT, NMR, 8 STRUCTURES          
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: ANTISENSE HYBRID DUPLEX;                                   
COMPND   3 CHAIN: A;                                                            
COMPND   4 ENGINEERED: YES;                                                     
COMPND   5 OTHER_DETAILS: T6-3'-THIOFORMACETAL IN THE DNA STRAND;               
COMPND   6 MOL_ID: 2;                                                           
COMPND   7 MOLECULE: DNA (5'-D(*(TCP)P*TP*GP*CP*GP*C)-3');                      
COMPND   8 CHAIN: B;                                                            
COMPND   9 ENGINEERED: YES;                                                     
COMPND  10 OTHER_DETAILS: T6-3'-THIOFORMACETAL IN THE DNA STRAND                
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 SYNTHETIC: YES;                                                      
SOURCE   3 MOL_ID: 2;                                                           
SOURCE   4 SYNTHETIC: YES                                                       
KEYWDS    RNA, DNA, ANTISENSE OLIGONUCLEOTIDES, THIOFORMACETAL BACKBONE         
KEYWDS   2 MODIFICATION, HYBRID DUPLEX, DNA-RNA HYBRID COMPLEX, DNA-RNA HYBRID  
EXPDTA    SOLUTION NMR                                                          
NUMMDL    8                                                                     
AUTHOR    C.W.CROSS,J.S.RICE,X.GAO                                              
REVDAT   5   10-APR-24 1AC3    1       LINK                                     
REVDAT   4   22-JUL-20 1AC3    1       REMARK SEQRES                            
REVDAT   3   31-JUL-19 1AC3    1       KEYWDS REMARK LINK                       
REVDAT   2   24-FEB-09 1AC3    1       VERSN                                    
REVDAT   1   16-JUN-97 1AC3    0                                                
JRNL        AUTH   C.W.CROSS,J.S.RICE,X.GAO                                     
JRNL        TITL   SOLUTION STRUCTURE OF AN RNA X DNA HYBRID DUPLEX CONTAINING  
JRNL        TITL 2 A 3'-THIOFORMACETAL LINKER AND AN RNA A-TRACT.               
JRNL        REF    BIOCHEMISTRY                  V.  36  4096 1997              
JRNL        REFN                   ISSN 0006-2960                               
JRNL        PMID   9100003                                                      
JRNL        DOI    10.1021/BI962382K                                            
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : X-PLOR                                               
REMARK   3   AUTHORS     : BRUNGER                                              
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: 1. GENERATE DISTANCE RESTRAINTS USING     
REMARK   3  MARDIGRAS PROGRAM FROM T. JAMES' LAB. 2. MODEL BUILDING T. JAMES'   
REMARK   3  LAB.USING QUANTA. 3. RANDOMIZE STRUCTURES BY DYNAMICS               
REMARK   3  SIMULATIONS. 4. ITERATIVE CALCULATIONS. 5. FINAL RELAXATION         
REMARK   3  MATRIX REFINEMENT.                                                  
REMARK   4                                                                      
REMARK   4 1AC3 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.                                
REMARK 100 THE DEPOSITION ID IS D_1000170640.                                   
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : 298; 288                           
REMARK 210  PH                             : 7.0; 7.0                           
REMARK 210  IONIC STRENGTH                 : NULL; NULL                         
REMARK 210  PRESSURE                       : NULL; NULL                         
REMARK 210  SAMPLE CONTENTS                : NULL                               
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : NOESY; DQF-COSY                    
REMARK 210  SPECTROMETER FIELD STRENGTH    : 600 MHZ                            
REMARK 210  SPECTROMETER MODEL             : AMX-II                             
REMARK 210  SPECTROMETER MANUFACTURER      : BRUKER                             
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : X-PLOR                             
REMARK 210   METHOD USED                   : SIMULATED ANNEALING, MOLECULAR     
REMARK 210                                   DYNAMICS SIMULATIONS AND           
REMARK 210                                   RELAXATION MATRIX REFINEMENT       
REMARK 210                                                                      
REMARK 210 CONFORMERS, NUMBER CALCULATED   : 10                                 
REMARK 210 CONFORMERS, NUMBER SUBMITTED    : 8                                  
REMARK 210 CONFORMERS, SELECTION CRITERIA  : IDEAL GEOMETRY, NOE VIOLATIONS,    
REMARK 210                                   COORDINATE RMSD                    
REMARK 210                                                                      
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL                
REMARK 210                                                                      
REMARK 210 REMARK: IONIC_STRENGTH: 0.1 M NACL, 10 MM PO4 PRESSURE: 1 SOLVENT    
REMARK 210  SYSTEM: AQUEOUS THE STRUCTURE WAS DETERMINED USING PROTON-PROTON    
REMARK 210  AND PROTON-PHOSPHOROUS 1D AND 2D NMR SPECTROSCOPY.                  
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: DIMERIC                           
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B                                  
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: 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  1  DC A   1   O4' -  C1' -  N1  ANGL. DEV. =   5.3 DEGREES          
REMARK 500  1  DG A   2   O4' -  C1' -  N9  ANGL. DEV. =   3.0 DEGREES          
REMARK 500  1  DC A   3   O4' -  C1' -  N1  ANGL. DEV. =   4.6 DEGREES          
REMARK 500  1  DG A   4   O4' -  C1' -  N9  ANGL. DEV. =   4.2 DEGREES          
REMARK 500  1  DT A   5   O4' -  C1' -  N1  ANGL. DEV. =   4.4 DEGREES          
REMARK 500  1  DG A   9   O4' -  C1' -  N9  ANGL. DEV. =   3.0 DEGREES          
REMARK 500  1  DC A  10   O4' -  C1' -  N1  ANGL. DEV. =   3.4 DEGREES          
REMARK 500  1  DG A  11   O4' -  C1' -  N9  ANGL. DEV. =   2.8 DEGREES          
REMARK 500  1  DC A  12   O4' -  C1' -  N1  ANGL. DEV. =   3.4 DEGREES          
REMARK 500  1   C B  14   O4' -  C1' -  N1  ANGL. DEV. =   4.7 DEGREES          
REMARK 500  1   C B  16   O4' -  C1' -  N1  ANGL. DEV. =   4.9 DEGREES          
REMARK 500  1   A B  19   O4' -  C1' -  N9  ANGL. DEV. =   5.1 DEGREES          
REMARK 500  1   C B  21   O4' -  C1' -  N1  ANGL. DEV. =   4.6 DEGREES          
REMARK 500  1   C B  23   O4' -  C1' -  N1  ANGL. DEV. =   6.0 DEGREES          
REMARK 500  2  DC A   1   O4' -  C1' -  N1  ANGL. DEV. =   5.1 DEGREES          
REMARK 500  2  DG A   2   O4' -  C1' -  N9  ANGL. DEV. =   3.0 DEGREES          
REMARK 500  2  DC A   3   O4' -  C1' -  N1  ANGL. DEV. =   4.6 DEGREES          
REMARK 500  2  DG A   4   O4' -  C1' -  N9  ANGL. DEV. =   3.7 DEGREES          
REMARK 500  2  DT A   5   O4' -  C1' -  N1  ANGL. DEV. =   4.0 DEGREES          
REMARK 500  2  DG A   9   O4' -  C1' -  N9  ANGL. DEV. =   3.0 DEGREES          
REMARK 500  2  DC A  10   O4' -  C1' -  N1  ANGL. DEV. =   4.0 DEGREES          
REMARK 500  2  DG A  11   O4' -  C1' -  N9  ANGL. DEV. =   2.9 DEGREES          
REMARK 500  2  DC A  12   O4' -  C1' -  N1  ANGL. DEV. =   3.8 DEGREES          
REMARK 500  2   C B  14   O4' -  C1' -  N1  ANGL. DEV. =   5.2 DEGREES          
REMARK 500  2   C B  16   O4' -  C1' -  N1  ANGL. DEV. =   4.5 DEGREES          
REMARK 500  2   A B  19   O4' -  C1' -  N9  ANGL. DEV. =   5.1 DEGREES          
REMARK 500  2   C B  21   O4' -  C1' -  N1  ANGL. DEV. =   4.8 DEGREES          
REMARK 500  2   C B  23   O4' -  C1' -  N1  ANGL. DEV. =   5.9 DEGREES          
REMARK 500  3  DC A   1   O4' -  C1' -  N1  ANGL. DEV. =   5.4 DEGREES          
REMARK 500  3  DG A   2   O4' -  C1' -  N9  ANGL. DEV. =   3.1 DEGREES          
REMARK 500  3  DC A   3   O4' -  C1' -  N1  ANGL. DEV. =   5.2 DEGREES          
REMARK 500  3  DG A   4   O4' -  C1' -  N9  ANGL. DEV. =   3.3 DEGREES          
REMARK 500  3  DT A   5   O4' -  C1' -  N1  ANGL. DEV. =   4.0 DEGREES          
REMARK 500  3  DG A   9   O4' -  C1' -  N9  ANGL. DEV. =   3.3 DEGREES          
REMARK 500  3  DC A  10   O4' -  C1' -  N1  ANGL. DEV. =   3.9 DEGREES          
REMARK 500  3  DG A  11   O4' -  C1' -  N9  ANGL. DEV. =   2.4 DEGREES          
REMARK 500  3  DC A  12   O4' -  C1' -  N1  ANGL. DEV. =   3.2 DEGREES          
REMARK 500  3   C B  14   O4' -  C1' -  N1  ANGL. DEV. =   5.2 DEGREES          
REMARK 500  3   C B  16   O4' -  C1' -  N1  ANGL. DEV. =   5.5 DEGREES          
REMARK 500  3   A B  19   O4' -  C1' -  N9  ANGL. DEV. =   5.0 DEGREES          
REMARK 500  3   C B  21   O4' -  C1' -  N1  ANGL. DEV. =   4.4 DEGREES          
REMARK 500  3   C B  23   O4' -  C1' -  N1  ANGL. DEV. =   6.0 DEGREES          
REMARK 500  4  DC A   1   O4' -  C1' -  N1  ANGL. DEV. =   5.4 DEGREES          
REMARK 500  4  DG A   2   O4' -  C1' -  N9  ANGL. DEV. =   3.0 DEGREES          
REMARK 500  4  DC A   3   O4' -  C1' -  N1  ANGL. DEV. =   4.7 DEGREES          
REMARK 500  4  DG A   4   O4' -  C1' -  N9  ANGL. DEV. =   3.1 DEGREES          
REMARK 500  4  DT A   5   O4' -  C1' -  N1  ANGL. DEV. =   4.2 DEGREES          
REMARK 500  4  DG A   9   O4' -  C1' -  N9  ANGL. DEV. =   3.6 DEGREES          
REMARK 500  4  DC A  10   O4' -  C1' -  N1  ANGL. DEV. =   4.4 DEGREES          
REMARK 500  4  DG A  11   O4' -  C1' -  N9  ANGL. DEV. =   2.8 DEGREES          
REMARK 500                                                                      
REMARK 500 THIS ENTRY HAS     113 ANGLE DEVIATIONS.                             
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  2   G B  15         0.07    SIDE CHAIN                              
REMARK 500  3   C B  21         0.06    SIDE CHAIN                              
REMARK 500  6   C B  21         0.07    SIDE CHAIN                              
REMARK 500  7   C B  21         0.07    SIDE CHAIN                              
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
DBREF  1AC3 A    1    12  PDB    1AC3     1AC3             1     12             
DBREF  1AC3 B   13    24  PDB    1AC3     1AC3            13     24             
SEQRES   1 A   12   DC  DG  DC  DG  DT TSP TCP  DT  DG  DC  DG  DC              
SEQRES   1 B   12    G   C   G   C   A   A   A   A   C   G   C   G              
MODRES 1AC3 TSP A    6    T  3'-THIO-THYMIDINE-5'-PHOSPHATE                     
MODRES 1AC3 TCP A    7   DT  5'-METHYLTHYMIDINE                                 
HET    TSP  A   6      32                                                       
HET    TCP  A   7      32                                                       
HETNAM     TSP 3'-THIO-THYMIDINE-5'-PHOSPHATE                                   
HETNAM     TCP 5'-METHYLTHYMIDINE                                               
FORMUL   1  TSP    C10 H15 N2 O7 P S                                            
FORMUL   1  TCP    C11 H16 N2 O5                                                
LINK         O3'  DT A   5                 P   TSP A   6     1555   1555  1.61  
LINK         S3' TSP A   6                 CP  TCP A   7     1555   1555  1.81  
LINK         O3' TCP A   7                 P    DT A   8     1555   1555  1.61  
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