PDB Short entry for 104D
HEADER    DNA-RNA HYBRID                          16-DEC-94   104D              
TITLE     DNA DUPLEXES FLANKED BY HYBRID DUPLEXES: THE SOLUTION STRUCTURE OF    
TITLE    2 CHIMERIC JUNCTIONS IN                                                
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: DNA/RNA (5'-R(*CP*GP*CP*G)-D(P*TP*AP*TP*AP*CP*GP*CP*G)-3');
COMPND   3 CHAIN: A, B;                                                         
COMPND   4 ENGINEERED: YES                                                      
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 SYNTHETIC: YES;                                                      
SOURCE   3 OTHER_DETAILS: CHEMICALLY SYNTHESIZED                                
KEYWDS    DNA, RNA, JUNCTION, HYBRID, DUPLEX, DNA-RNA COMPLEX, DNA-RNA HYBRID   
EXPDTA    SOLUTION NMR                                                          
AUTHOR    L.ZHU,M.SALAZAR,B.R.REID                                              
REVDAT   4   16-FEB-22 104D    1       REMARK                                   
REVDAT   3   24-FEB-09 104D    1       VERSN                                    
REVDAT   2   01-APR-03 104D    1       JRNL                                     
REVDAT   1   31-MAR-95 104D    0                                                
JRNL        AUTH   L.ZHU,M.SALAZAR,B.R.REID                                     
JRNL        TITL   DNA DUPLEXES FLANKED BY HYBRID DUPLEXES: THE SOLUTION        
JRNL        TITL 2 STRUCTURE OF CHIMERIC JUNCTIONS IN [R(CGCG)D(TATACGCG)]2.    
JRNL        REF    BIOCHEMISTRY                  V.  34  2372 1995              
JRNL        REFN                   ISSN 0006-2960                               
JRNL        PMID   7857947                                                      
JRNL        DOI    10.1021/BI00007A033                                          
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : AMBER                                                
REMARK   3   AUTHORS     : BIOSYM TECHNOLOGIES, INC.                            
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: R VALUE 0.160 FINAL RMS COORD. SHIFT      
REMARK   3  0.65 ANGSTROMS NUMBER OF ATOMS USED IN REFINEMENT. NUMBER OF        
REMARK   3  PROTEIN ATOMS 0 NUMBER OF NUCLEIC ACID ATOMS 766 NUMBER OF          
REMARK   3  HETEROGEN ATOMS 0 NUMBER OF SOLVENT ATOMS 0                         
REMARK   4                                                                      
REMARK   4 104D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.                                
REMARK 100 THE DEPOSITION ID IS D_1000170010.                                   
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : NULL                               
REMARK 210  PH                             : NULL                               
REMARK 210  IONIC STRENGTH                 : NULL                               
REMARK 210  PRESSURE                       : NULL                               
REMARK 210  SAMPLE CONTENTS                : NULL                               
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : NULL                               
REMARK 210  SPECTROMETER FIELD STRENGTH    : NULL                               
REMARK 210  SPECTROMETER MODEL             : NULL                               
REMARK 210  SPECTROMETER MANUFACTURER      : NULL                               
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : NULL                               
REMARK 210   METHOD USED                   : NULL                               
REMARK 210                                                                      
REMARK 210 CONFORMERS, NUMBER CALCULATED   : NULL                               
REMARK 210 CONFORMERS, NUMBER SUBMITTED    : 1                                  
REMARK 210 CONFORMERS, SELECTION CRITERIA  : NULL                               
REMARK 210                                                                      
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL                
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: 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 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      G B  14   C8      G B  14   N9     -0.042                       
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      C A   1   C3' -  C2' -  C1' ANGL. DEV. =   5.3 DEGREES          
REMARK 500      C A   1   O4' -  C1' -  N1  ANGL. DEV. =   6.6 DEGREES          
REMARK 500      G A   2   C5' -  C4' -  O4' ANGL. DEV. =   6.0 DEGREES          
REMARK 500      G A   2   O4' -  C1' -  N9  ANGL. DEV. =   7.3 DEGREES          
REMARK 500      G A   2   N7  -  C8  -  N9  ANGL. DEV. =   3.9 DEGREES          
REMARK 500      C A   3   C5' -  C4' -  O4' ANGL. DEV. =   6.4 DEGREES          
REMARK 500      C A   3   O4' -  C1' -  N1  ANGL. DEV. =   5.6 DEGREES          
REMARK 500      G A   4   O4' -  C1' -  N9  ANGL. DEV. =   5.3 DEGREES          
REMARK 500     DT A   5   O4' -  C1' -  N1  ANGL. DEV. =   5.7 DEGREES          
REMARK 500     DA A   6   O4' -  C1' -  N9  ANGL. DEV. =   2.5 DEGREES          
REMARK 500     DT A   7   O4' -  C1' -  N1  ANGL. DEV. =   4.7 DEGREES          
REMARK 500     DC A   9   O4' -  C1' -  N1  ANGL. DEV. =   4.9 DEGREES          
REMARK 500     DG A  10   O4' -  C1' -  N9  ANGL. DEV. =   7.2 DEGREES          
REMARK 500     DG A  12   O4' -  C1' -  N9  ANGL. DEV. =   4.0 DEGREES          
REMARK 500      C B  13   C3' -  C2' -  C1' ANGL. DEV. =   5.1 DEGREES          
REMARK 500      C B  13   O4' -  C1' -  N1  ANGL. DEV. =   6.3 DEGREES          
REMARK 500      G B  14   C5' -  C4' -  O4' ANGL. DEV. =   6.2 DEGREES          
REMARK 500      G B  14   O4' -  C1' -  N9  ANGL. DEV. =   7.3 DEGREES          
REMARK 500      G B  14   N7  -  C8  -  N9  ANGL. DEV. =   3.9 DEGREES          
REMARK 500      C B  15   C5' -  C4' -  O4' ANGL. DEV. =   6.4 DEGREES          
REMARK 500      C B  15   O4' -  C1' -  N1  ANGL. DEV. =   5.9 DEGREES          
REMARK 500      G B  16   O4' -  C1' -  N9  ANGL. DEV. =   5.3 DEGREES          
REMARK 500     DT B  17   O4' -  C1' -  N1  ANGL. DEV. =   5.7 DEGREES          
REMARK 500     DA B  18   O4' -  C1' -  N9  ANGL. DEV. =   2.5 DEGREES          
REMARK 500     DT B  19   O4' -  C1' -  N1  ANGL. DEV. =   4.6 DEGREES          
REMARK 500     DC B  21   O4' -  C1' -  N1  ANGL. DEV. =   5.0 DEGREES          
REMARK 500     DG B  22   O4' -  C1' -  N9  ANGL. DEV. =   7.3 DEGREES          
REMARK 500     DG B  24   O4' -  C1' -  N9  ANGL. DEV. =   3.8 DEGREES          
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      G A   2         0.07    SIDE CHAIN                              
REMARK 500     DT A   5         0.07    SIDE CHAIN                              
REMARK 500     DA A   6         0.13    SIDE CHAIN                              
REMARK 500     DT A   7         0.08    SIDE CHAIN                              
REMARK 500      G B  14         0.07    SIDE CHAIN                              
REMARK 500     DT B  17         0.08    SIDE CHAIN                              
REMARK 500     DA B  18         0.13    SIDE CHAIN                              
REMARK 500     DT B  19         0.08    SIDE CHAIN                              
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
DBREF  104D A    1    12  PDB    104D     104D             1     12             
DBREF  104D B   13    24  PDB    104D     104D            13     24             
SEQRES   1 A   12    C   G   C   G  DT  DA  DT  DA  DC  DG  DC  DG              
SEQRES   1 B   12    C   G   C   G  DT  DA  DT  DA  DC  DG  DC  DG              
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