PDB Short entry for 1HO6
HEADER    DNA, RNA                                08-DEC-00   1HO6              
TITLE     CHIMERIC ARABINONUCLEIC ACID (ANA) HAIRPIN WITH ANA/RNA               
TITLE    2 HYBRID STEM                                                          
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: DNA/RNA (5'-R(*GP*GP*AP*C)-D(P*TP*TP*CP*G)-                
COMPND   3 (P*(GAO)P*(UAR)P*(CAR)P*(CAR)-3');                                   
COMPND   4 CHAIN: A;                                                            
COMPND   5 ENGINEERED: YES                                                      
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 SYNTHETIC: YES;                                                      
SOURCE   3 OTHER_DETAILS: SOLID PHASE SYNTHESIS, PHOSPHORAMIDITE                
SOURCE   4 CHEMISTRY                                                            
KEYWDS    ARABINONUCLEIC ACID, RNA, HAIRPIN, DNA                                
EXPDTA    SOLUTION NMR                                                          
NUMMDL    10                                                                    
AUTHOR    A.Y.DENISOV,K.GEHRING                                                 
REVDAT   3   24-FEB-09 1HO6    1       VERSN                                    
REVDAT   2   01-APR-03 1HO6    1       JRNL                                     
REVDAT   1   07-NOV-01 1HO6    0                                                
JRNL        AUTH   A.Y.DENISOV,A.M.NORONHA,C.J.WILDS,J.F.TREMPE,                
JRNL        AUTH 2 R.T.PON,K.GEHRING,M.J.DAMHA                                  
JRNL        TITL   SOLUTION STRUCTURE OF AN ARABINONUCLEIC ACID                 
JRNL        TITL 2 (ANA)/RNA DUPLEX IN A CHIMERIC HAIRPIN: COMPARISON           
JRNL        TITL 3 WITH 2'-FLUORO-ANA/RNA AND DNA/RNA HYBRIDS.                  
JRNL        REF    NUCLEIC ACIDS RES.            V.  29  4284 2001              
JRNL        REFN                   ISSN 0305-1048                               
JRNL        PMID   11691916                                                     
JRNL        DOI    10.1093/NAR/29.21.4284                                       
REMARK   1                                                                      
REMARK   1 REFERENCE 1                                                          
REMARK   1  AUTH   M.J.DAMHA,A.M.NORONHA,C.J.WILDS,J.F.TREMPE,                  
REMARK   1  AUTH 2 A.Y.DENISOV,R.T.PON,K.GEHRING                                
REMARK   1  TITL   PROPERTIES OF ARABINONUCLEIC ACIDS (ANA &                    
REMARK   1  TITL 2 2'F-ANA): IMPLICATIONS FOR THE DESIGN OF ANTISENSE           
REMARK   1  TITL 3 THERAPEUTICS THAT INVOKE RNASE H CLEAVAGE OF RNA             
REMARK   1  REF    NUCLEOSIDES AND NUCLEOTIDES   V.  20   429 2001              
REMARK   1  REFN                   ISSN 0732-8311                               
REMARK   1  DOI    10.1081/NCN-100002317                                        
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : X-PLOR 3.843                                         
REMARK   3   AUTHORS     : BRUNGER                                              
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: STARTING A- AND B-TYPE STEM HAIRPIN       
REMARK   3  STRUCTURES WITH RANDOMLY ORGANIZED LOOPS WERE REFINED BY 14 PS      
REMARK   3  RESTRAINED MOLECULAR DYNAMICS (300-1000 K) WITH FINAL ENEGRY        
REMARK   3  MINIMIZATION                                                        
REMARK   4                                                                      
REMARK   4 1HO6 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-DEC-00.                  
REMARK 100 THE RCSB ID CODE IS RCSB012479.                                      
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : 288                                
REMARK 210  PH                             : 7.0                                
REMARK 210  IONIC STRENGTH                 : NULL                               
REMARK 210  PRESSURE                       : 1ATM                               
REMARK 210  SAMPLE CONTENTS                : 1 MM HAIRPIN; 1 MM HAIRPIN         
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : DQF-COSY, 2D-NOESY                 
REMARK 210  SPECTROMETER FIELD STRENGTH    : 500 MHZ                            
REMARK 210  SPECTROMETER MODEL             : DRX                                
REMARK 210  SPECTROMETER MANUFACTURER      : BRUKER                             
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : X-PLOR                             
REMARK 210   METHOD USED                   : SIMULATED ANNEALING                
REMARK 210                                                                      
REMARK 210 CONFORMERS, NUMBER CALCULATED   : 10                                 
REMARK 210 CONFORMERS, NUMBER SUBMITTED    : 10                                 
REMARK 210 CONFORMERS, SELECTION CRITERIA  : ALL CALCULATED STRUCTURES          
REMARK 210                                   SUBMITTED                          
REMARK 210                                                                      
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1                   
REMARK 210                                                                      
REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D HOMO-        
REMARK 210  AND HETERONUCLEAR TECHNIQUES: NOESY, DQF-COSY, TOCSY, H,C-HMQC      
REMARK 210  AND H,P-HETCOSY                                                     
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: 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   G A   1   N7  -  C8  -  N9  ANGL. DEV. =   4.4 DEGREES          
REMARK 500  1   G A   2   N7  -  C8  -  N9  ANGL. DEV. =   4.7 DEGREES          
REMARK 500  1   G A   2   C8  -  N9  -  C4  ANGL. DEV. =  -2.5 DEGREES          
REMARK 500  1   A A   3   N7  -  C8  -  N9  ANGL. DEV. =   3.8 DEGREES          
REMARK 500  1  DT A   5   O4' -  C1' -  N1  ANGL. DEV. =   2.7 DEGREES          
REMARK 500  1  DT A   6   O4' -  C1' -  N1  ANGL. DEV. =   2.7 DEGREES          
REMARK 500  1  DC A   7   O4' -  C1' -  N1  ANGL. DEV. =   2.5 DEGREES          
REMARK 500  1  DG A   8   O4' -  C1' -  N9  ANGL. DEV. =   3.9 DEGREES          
REMARK 500  1  DG A   8   N7  -  C8  -  N9  ANGL. DEV. =   4.6 DEGREES          
REMARK 500  1  DG A   8   C8  -  N9  -  C4  ANGL. DEV. =  -2.8 DEGREES          
REMARK 500  2   G A   1   N7  -  C8  -  N9  ANGL. DEV. =   4.4 DEGREES          
REMARK 500  2   G A   2   N7  -  C8  -  N9  ANGL. DEV. =   5.0 DEGREES          
REMARK 500  2   G A   2   C8  -  N9  -  C4  ANGL. DEV. =  -2.4 DEGREES          
REMARK 500  2   A A   3   N7  -  C8  -  N9  ANGL. DEV. =   3.6 DEGREES          
REMARK 500  2  DT A   5   O4' -  C1' -  N1  ANGL. DEV. =   3.7 DEGREES          
REMARK 500  2  DT A   6   C6  -  C5  -  C7  ANGL. DEV. =  -3.7 DEGREES          
REMARK 500  2  DC A   7   O4' -  C1' -  N1  ANGL. DEV. =   2.4 DEGREES          
REMARK 500  2  DG A   8   O4' -  C1' -  N9  ANGL. DEV. =   2.8 DEGREES          
REMARK 500  2  DG A   8   N7  -  C8  -  N9  ANGL. DEV. =   4.6 DEGREES          
REMARK 500  2  DG A   8   C8  -  N9  -  C4  ANGL. DEV. =  -2.5 DEGREES          
REMARK 500  3   G A   1   N7  -  C8  -  N9  ANGL. DEV. =   4.7 DEGREES          
REMARK 500  3   G A   1   C8  -  N9  -  C4  ANGL. DEV. =  -2.6 DEGREES          
REMARK 500  3   G A   2   N7  -  C8  -  N9  ANGL. DEV. =   4.4 DEGREES          
REMARK 500  3   A A   3   N7  -  C8  -  N9  ANGL. DEV. =   3.8 DEGREES          
REMARK 500  3  DT A   5   O4' -  C1' -  N1  ANGL. DEV. =   3.1 DEGREES          
REMARK 500  3  DT A   6   O4' -  C1' -  N1  ANGL. DEV. =   2.7 DEGREES          
REMARK 500  3  DC A   7   O4' -  C1' -  N1  ANGL. DEV. =   3.4 DEGREES          
REMARK 500  3  DG A   8   O4' -  C1' -  N9  ANGL. DEV. =   2.2 DEGREES          
REMARK 500  3  DG A   8   N7  -  C8  -  N9  ANGL. DEV. =   4.7 DEGREES          
REMARK 500  3  DG A   8   C8  -  N9  -  C4  ANGL. DEV. =  -2.6 DEGREES          
REMARK 500  4   G A   1   N7  -  C8  -  N9  ANGL. DEV. =   4.5 DEGREES          
REMARK 500  4   G A   2   N7  -  C8  -  N9  ANGL. DEV. =   4.8 DEGREES          
REMARK 500  4   A A   3   N7  -  C8  -  N9  ANGL. DEV. =   3.6 DEGREES          
REMARK 500  4  DT A   5   O4' -  C1' -  N1  ANGL. DEV. =   3.8 DEGREES          
REMARK 500  4  DT A   6   O4' -  C1' -  N1  ANGL. DEV. =   1.9 DEGREES          
REMARK 500  4  DT A   6   C6  -  C5  -  C7  ANGL. DEV. =  -3.8 DEGREES          
REMARK 500  4  DC A   7   O4' -  C1' -  N1  ANGL. DEV. =   3.1 DEGREES          
REMARK 500  4  DG A   8   O4' -  C1' -  N9  ANGL. DEV. =   2.1 DEGREES          
REMARK 500  4  DG A   8   N7  -  C8  -  N9  ANGL. DEV. =   4.7 DEGREES          
REMARK 500  4  DG A   8   C8  -  N9  -  C4  ANGL. DEV. =  -2.4 DEGREES          
REMARK 500  5   G A   1   N7  -  C8  -  N9  ANGL. DEV. =   4.7 DEGREES          
REMARK 500  5   G A   1   C8  -  N9  -  C4  ANGL. DEV. =  -2.4 DEGREES          
REMARK 500  5   G A   2   N7  -  C8  -  N9  ANGL. DEV. =   4.7 DEGREES          
REMARK 500  5   G A   2   C8  -  N9  -  C4  ANGL. DEV. =  -2.5 DEGREES          
REMARK 500  5   A A   3   N7  -  C8  -  N9  ANGL. DEV. =   3.7 DEGREES          
REMARK 500  5  DT A   5   O4' -  C1' -  N1  ANGL. DEV. =   3.3 DEGREES          
REMARK 500  5  DT A   6   O4' -  C1' -  N1  ANGL. DEV. =   3.5 DEGREES          
REMARK 500  5  DC A   7   O4' -  C1' -  N1  ANGL. DEV. =   2.1 DEGREES          
REMARK 500  5  DG A   8   O4' -  C1' -  N9  ANGL. DEV. =   2.1 DEGREES          
REMARK 500  5  DG A   8   N7  -  C8  -  N9  ANGL. DEV. =   4.6 DEGREES          
REMARK 500                                                                      
REMARK 500 THIS ENTRY HAS     104 ANGLE DEVIATIONS.                             
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: 1FC8   RELATED DB: PDB                                   
REMARK 900 1FC8 CONTAINS THE SAME HAIRPIN BUT WITH 2'F-ANA INSTEAD OF           
REMARK 900 ANA                                                                  
REMARK 900 RELATED ID: 1HOQ   RELATED DB: PDB                                   
REMARK 900 1HOQ CONTAINS THE SAME HAIRPIN BUT WITH RNA/DNA STEM                 
DBREF  1HO6 A    1    12  PDB    1HO6     1HO6             1     12             
SEQRES   1 A   12    G   G   A   C  DT  DT  DC  DG GAO UAR CAR CAR              
MODRES 1HO6 GAO A    9    G  GUANINE ARABINOSE-5'-PHOSPHATE                     
MODRES 1HO6 UAR A   10    U  URACIL ARABINOSE-5'-PHOSPHATE                      
MODRES 1HO6 CAR A   11   DC  CYTOSINE ARABINOSE-5'-PHOSPHATE                    
MODRES 1HO6 CAR A   12   DC  CYTOSINE ARABINOSE-5'-PHOSPHATE                    
HET    GAO  A   9      34                                                       
HET    UAR  A  10      30                                                       
HET    CAR  A  11      31                                                       
HET    CAR  A  12      32                                                       
HETNAM     GAO GUANINE ARABINOSE-5'-PHOSPHATE                                   
HETNAM     UAR URACIL ARABINOSE-5'-PHOSPHATE                                    
HETNAM     CAR CYTOSINE ARABINOSE-5'-PHOSPHATE                                  
FORMUL   1  GAO    C10 H14 N5 O8 P                                              
FORMUL   1  UAR    C9 H13 N2 O9 P                                               
FORMUL   1  CAR    2(C9 H14 N3 O8 P)                                            
LINK         O3'  DG A   8                 P   GAO A   9     1555   1555  1.61  
LINK         O3' GAO A   9                 P   UAR A  10     1555   1555  1.61  
LINK         O3' UAR A  10                 P   CAR A  11     1555   1555  1.61  
LINK         O3' CAR A  11                 P   CAR A  12     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