HEADER    DNA                                     11-OCT-24   9JX5              
TITLE     SOLUTION NMR STRUCTURE OF THE 1:1 COMPLEX OF NOP56 INTRONIC G-        
TITLE    2 QUADRUPLEX BOUND WITH PYRIDOSTATIN                                   
COMPND    MOL_ID: 1;                                                            
COMPND   2 MOLECULE: DNA (5'-                                                   
COMPND   3 D(*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*G)-   
COMPND   4 3');                                                                 
COMPND   5 CHAIN: A;                                                            
COMPND   6 ENGINEERED: YES                                                      
SOURCE    MOL_ID: 1;                                                            
SOURCE   2 SYNTHETIC: YES;                                                      
SOURCE   3 ORGANISM_SCIENTIFIC: HOMO SAPIENS;                                   
SOURCE   4 ORGANISM_TAXID: 9606                                                 
KEYWDS    ANTIPARALLEL G4, NOP56 ONCOGENE, PDS, DNA                             
EXPDTA    SOLUTION NMR                                                          
NUMMDL    10                                                                    
AUTHOR    Z.YAN,L.WAN,P.GUO,D.HAN                                               
REVDAT   1   05-FEB-25 9JX5    0                                                
JRNL        AUTH   Z.YAN,L.WAN,P.GUO,D.HAN                                      
JRNL        TITL   STRUCTURAL INSIGHTS INTO AN ANTIPARALLEL CHAIR-TYPE          
JRNL        TITL 2 G-QUADRUPLEX FROM THE INTRON OF NOP56 ONCOGENE               
JRNL        REF    TO BE PUBLISHED                                              
JRNL        REFN                                                                
REMARK   2                                                                      
REMARK   2 RESOLUTION. NOT APPLICABLE.                                          
REMARK   3                                                                      
REMARK   3 REFINEMENT.                                                          
REMARK   3   PROGRAM     : AMBER                                                
REMARK   3   AUTHORS     : CASE, DARDEN, CHEATHAM III, SIMMERLING, WANG,        
REMARK   3                 DUKE, LUO, ... AND KOLLMAN                           
REMARK   3                                                                      
REMARK   3  OTHER REFINEMENT REMARKS: NULL                                      
REMARK   4                                                                      
REMARK   4 9JX5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11                         
REMARK 100                                                                      
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 15-OCT-24.                  
REMARK 100 THE DEPOSITION ID IS D_1300052496.                                   
REMARK 210                                                                      
REMARK 210 EXPERIMENTAL DETAILS                                                 
REMARK 210  EXPERIMENT TYPE                : NMR                                
REMARK 210  TEMPERATURE           (KELVIN) : 298                                
REMARK 210  PH                             : 7                                  
REMARK 210  IONIC STRENGTH                 : 1                                  
REMARK 210  PRESSURE                       : 1 ATM                              
REMARK 210  SAMPLE CONTENTS                : 0.5 MM DNA (5'                     
REMARK 210  -D(*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*TP*GP*GP*    
REMARK 210  G)-3'), 1 MM SODIUM PHOSPHATE, 0.02 MM DSS, 1.5 MM PYRIDOSTATIN,    
REMARK 210  99.96% D2O; 0.5 MM DNA (5'-D(*GP*GP*GP*CP*CP*TP*GP*GP*GP*CP*CP*     
REMARK 210  TP*GP*GP*GP*CP*CP*TP*GP*GP*G)-3'), 1 MM SODIUM PHOSPHATE, 0.02      
REMARK 210  MM DSS, 1.5 MM PYRIDOSTATIN, 90% H2O/10% D2O                        
REMARK 210                                                                      
REMARK 210  NMR EXPERIMENTS CONDUCTED      : 2D 1H-1H NOESY; 2D 1H-1H TOCSY;    
REMARK 210                                   2D 1H-1H COSY                      
REMARK 210  SPECTROMETER FIELD STRENGTH    : 600 MHZ                            
REMARK 210  SPECTROMETER MODEL             : AVANCE                             
REMARK 210  SPECTROMETER MANUFACTURER      : BRUKER                             
REMARK 210                                                                      
REMARK 210  STRUCTURE DETERMINATION.                                            
REMARK 210   SOFTWARE USED                 : TOPSPIN                            
REMARK 210   METHOD USED                   : SIMULATED ANNEALING                
REMARK 210                                                                      
REMARK 210 CONFORMERS, NUMBER CALCULATED   : 500                                
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 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  DG A   1   O4' -  C1' -  N9  ANGL. DEV. =   2.8 DEGREES          
REMARK 500  1  DG A   2   N3  -  C4  -  C5  ANGL. DEV. =  -3.1 DEGREES          
REMARK 500  1  DG A   3   O4' -  C1' -  N9  ANGL. DEV. =   7.0 DEGREES          
REMARK 500  1  DC A   4   O4' -  C1' -  N1  ANGL. DEV. =   5.3 DEGREES          
REMARK 500  1  DC A   5   O4' -  C1' -  N1  ANGL. DEV. =   3.8 DEGREES          
REMARK 500  1  DT A   6   O4' -  C1' -  N1  ANGL. DEV. =   3.0 DEGREES          
REMARK 500  1  DG A   7   O4' -  C1' -  N9  ANGL. DEV. =   2.8 DEGREES          
REMARK 500  1  DG A   7   C3' -  O3' -  P   ANGL. DEV. =   8.4 DEGREES          
REMARK 500  1  DG A   8   O4' -  C1' -  N9  ANGL. DEV. =   4.7 DEGREES          
REMARK 500  1  DG A   9   O4' -  C1' -  N9  ANGL. DEV. =   4.0 DEGREES          
REMARK 500  1  DC A  10   O4' -  C1' -  N1  ANGL. DEV. =   3.5 DEGREES          
REMARK 500  1  DC A  11   O4' -  C1' -  C2' ANGL. DEV. =  -5.3 DEGREES          
REMARK 500  1  DC A  11   O4' -  C1' -  N1  ANGL. DEV. =   7.3 DEGREES          
REMARK 500  1  DG A  13   O4' -  C1' -  N9  ANGL. DEV. =   5.3 DEGREES          
REMARK 500  1  DG A  14   O4' -  C1' -  C2' ANGL. DEV. =  -6.0 DEGREES          
REMARK 500  1  DG A  14   O4' -  C1' -  N9  ANGL. DEV. =   6.9 DEGREES          
REMARK 500  1  DG A  14   N3  -  C4  -  C5  ANGL. DEV. =  -3.5 DEGREES          
REMARK 500  1  DG A  14   N3  -  C4  -  N9  ANGL. DEV. =   3.9 DEGREES          
REMARK 500  1  DG A  15   O4' -  C1' -  N9  ANGL. DEV. =   4.0 DEGREES          
REMARK 500  1  DC A  16   O4' -  C1' -  N1  ANGL. DEV. =   8.1 DEGREES          
REMARK 500  1  DC A  17   O4' -  C1' -  N1  ANGL. DEV. =   4.5 DEGREES          
REMARK 500  1  DG A  19   O4' -  C1' -  N9  ANGL. DEV. =   4.0 DEGREES          
REMARK 500  1  DG A  19   C3' -  O3' -  P   ANGL. DEV. =   8.1 DEGREES          
REMARK 500  1  DG A  20   O4' -  C1' -  N9  ANGL. DEV. =   3.7 DEGREES          
REMARK 500  1  DG A  21   O4' -  C1' -  N9  ANGL. DEV. =   5.5 DEGREES          
REMARK 500  2  DG A   1   O4' -  C1' -  C2' ANGL. DEV. =  -5.3 DEGREES          
REMARK 500  2  DG A   1   O4' -  C1' -  N9  ANGL. DEV. =   2.7 DEGREES          
REMARK 500  2  DG A   3   O4' -  C1' -  N9  ANGL. DEV. =   5.7 DEGREES          
REMARK 500  2  DC A   4   O4' -  C1' -  N1  ANGL. DEV. =   4.3 DEGREES          
REMARK 500  2  DC A   5   O4' -  C1' -  N1  ANGL. DEV. =   5.0 DEGREES          
REMARK 500  2  DG A   7   O4' -  C1' -  N9  ANGL. DEV. =   3.1 DEGREES          
REMARK 500  2  DG A   7   C3' -  O3' -  P   ANGL. DEV. =   9.5 DEGREES          
REMARK 500  2  DG A   8   O4' -  C1' -  N9  ANGL. DEV. =   3.4 DEGREES          
REMARK 500  2  DG A   9   O4' -  C1' -  N9  ANGL. DEV. =   3.9 DEGREES          
REMARK 500  2  DC A  11   O4' -  C1' -  N1  ANGL. DEV. =   3.9 DEGREES          
REMARK 500  2  DC A  11   C3' -  O3' -  P   ANGL. DEV. =   7.9 DEGREES          
REMARK 500  2  DT A  12   O4' -  C1' -  N1  ANGL. DEV. =   1.9 DEGREES          
REMARK 500  2  DG A  13   O4' -  C1' -  N9  ANGL. DEV. =   4.6 DEGREES          
REMARK 500  2  DG A  14   C1' -  O4' -  C4' ANGL. DEV. =  -6.1 DEGREES          
REMARK 500  2  DG A  14   O4' -  C1' -  C2' ANGL. DEV. =  -5.7 DEGREES          
REMARK 500  2  DG A  14   O4' -  C1' -  N9  ANGL. DEV. =   6.4 DEGREES          
REMARK 500  2  DG A  14   N3  -  C4  -  C5  ANGL. DEV. =  -3.2 DEGREES          
REMARK 500  2  DG A  15   O4' -  C1' -  N9  ANGL. DEV. =   3.9 DEGREES          
REMARK 500  2  DC A  16   O4' -  C1' -  N1  ANGL. DEV. =   5.8 DEGREES          
REMARK 500  2  DC A  17   O4' -  C1' -  N1  ANGL. DEV. =   4.9 DEGREES          
REMARK 500  2  DT A  18   O4' -  C1' -  N1  ANGL. DEV. =   3.1 DEGREES          
REMARK 500  2  DG A  19   O4' -  C1' -  N9  ANGL. DEV. =   2.7 DEGREES          
REMARK 500  2  DG A  19   C3' -  O3' -  P   ANGL. DEV. =   7.6 DEGREES          
REMARK 500  2  DG A  20   O4' -  C1' -  N9  ANGL. DEV. =   3.0 DEGREES          
REMARK 500  2  DG A  21   O4' -  C1' -  N9  ANGL. DEV. =   5.3 DEGREES          
REMARK 500                                                                      
REMARK 500 THIS ENTRY HAS     255 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  1  DG A   2         0.07    SIDE CHAIN                              
REMARK 500  1  DG A   3         0.09    SIDE CHAIN                              
REMARK 500  1  DC A  10         0.07    SIDE CHAIN                              
REMARK 500  1  DC A  11         0.08    SIDE CHAIN                              
REMARK 500  1  DT A  12         0.07    SIDE CHAIN                              
REMARK 500  1  DG A  13         0.11    SIDE CHAIN                              
REMARK 500  1  DC A  16         0.06    SIDE CHAIN                              
REMARK 500  1  DC A  17         0.12    SIDE CHAIN                              
REMARK 500  1  DG A  21         0.10    SIDE CHAIN                              
REMARK 500  2  DG A   2         0.07    SIDE CHAIN                              
REMARK 500  2  DG A   3         0.08    SIDE CHAIN                              
REMARK 500  2  DC A   5         0.08    SIDE CHAIN                              
REMARK 500  2  DG A  13         0.07    SIDE CHAIN                              
REMARK 500  2  DG A  15         0.06    SIDE CHAIN                              
REMARK 500  2  DG A  21         0.10    SIDE CHAIN                              
REMARK 500  3  DG A   2         0.07    SIDE CHAIN                              
REMARK 500  3  DG A   3         0.09    SIDE CHAIN                              
REMARK 500  3  DG A  13         0.08    SIDE CHAIN                              
REMARK 500  3  DC A  16         0.07    SIDE CHAIN                              
REMARK 500  3  DC A  17         0.07    SIDE CHAIN                              
REMARK 500  3  DG A  21         0.14    SIDE CHAIN                              
REMARK 500  4  DG A   1         0.07    SIDE CHAIN                              
REMARK 500  4  DG A   2         0.05    SIDE CHAIN                              
REMARK 500  4  DG A   3         0.07    SIDE CHAIN                              
REMARK 500  4  DG A   7         0.06    SIDE CHAIN                              
REMARK 500  4  DT A  12         0.09    SIDE CHAIN                              
REMARK 500  4  DG A  13         0.09    SIDE CHAIN                              
REMARK 500  4  DG A  15         0.07    SIDE CHAIN                              
REMARK 500  4  DT A  18         0.09    SIDE CHAIN                              
REMARK 500  4  DG A  21         0.14    SIDE CHAIN                              
REMARK 500  5  DG A   1         0.06    SIDE CHAIN                              
REMARK 500  5  DG A   2         0.07    SIDE CHAIN                              
REMARK 500  5  DG A   3         0.08    SIDE CHAIN                              
REMARK 500  5  DG A  13         0.08    SIDE CHAIN                              
REMARK 500  5  DG A  21         0.11    SIDE CHAIN                              
REMARK 500  6  DG A   1         0.06    SIDE CHAIN                              
REMARK 500  6  DG A   2         0.10    SIDE CHAIN                              
REMARK 500  6  DG A   3         0.06    SIDE CHAIN                              
REMARK 500  6  DC A   5         0.09    SIDE CHAIN                              
REMARK 500  6  DT A   6         0.09    SIDE CHAIN                              
REMARK 500  6  DG A  13         0.08    SIDE CHAIN                              
REMARK 500  6  DG A  21         0.09    SIDE CHAIN                              
REMARK 500  7  DG A   1         0.07    SIDE CHAIN                              
REMARK 500  7  DG A   2         0.07    SIDE CHAIN                              
REMARK 500  7  DG A   3         0.08    SIDE CHAIN                              
REMARK 500  7  DG A   7         0.06    SIDE CHAIN                              
REMARK 500  7  DG A  13         0.10    SIDE CHAIN                              
REMARK 500  7  DG A  21         0.12    SIDE CHAIN                              
REMARK 500  8  DG A   1         0.05    SIDE CHAIN                              
REMARK 500  8  DG A   2         0.07    SIDE CHAIN                              
REMARK 500                                                                      
REMARK 500 THIS ENTRY HAS      61 PLANE DEVIATIONS.                             
REMARK 500                                                                      
REMARK 500 REMARK: NULL                                                         
REMARK 600                                                                      
REMARK 600 HETEROGEN                                                            
REMARK 600                                                                      
REMARK 600 N36+H33+H34+H35, N40+H30+H31+H32 AND N52+H95+H96+H97 ARE THREE       
REMARK 600 PROTONATED (POSITIVE CHARGED) AMINO GROUPS. THEREFORE THE VALENCE    
REMARK 600 OF N36, N40 AND N52 IS FOUR.                                         
REMARK 900                                                                      
REMARK 900 RELATED ENTRIES                                                      
REMARK 900 RELATED ID: 36698   RELATED DB: BMRB                                 
REMARK 900 SOLUTION NMR STRUCTURE OF THE 1:1 COMPLEX OF NOP56 INTRONIC G-       
REMARK 900 QUADRUPLEX BOUND WITH PYRIDOSTATIN                                   
DBREF  9JX5 A    1    21  PDB    9JX5     9JX5             1     21             
SEQRES   1 A   21   DG  DG  DG  DC  DC  DT  DG  DG  DG  DC  DC  DT  DG          
SEQRES   2 A   21   DG  DG  DC  DC  DT  DG  DG  DG                              
HET    7V8  A 101      79                                                       
HETNAM     7V8 4-(2-AZANYLETHOXY)-N2,N6-BIS[4-(2-AZANYLETHOXY)                  
HETNAM   2 7V8  QUINOLIN-2-YL]PYRIDINE-2,6-DICARBOXAMIDE                        
HETSYN     7V8 PYRIDOSTATIN                                                     
FORMUL   2  7V8    C31 H32 N8 O5                                                
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