HEADER DNA 23-OCT-07 2JWQ TITLE G-QUADRUPLEX RECOGNITION BY QUINACRIDINES: A SAR, NMR AND TITLE 2 BIOLOGICAL STUDY COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*DTP*DTP*DAP*DGP*DGP*DGP*DT)-3'); COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES KEYWDS G-QUADRUPLEX, QUINACRIDINE, TELOMERASE INHIBITORS, DNA EXPDTA SOLUTION NMR MDLTYP MINIMIZED AVERAGE AUTHOR C.HOUNSOU,L.GUITTAT,D.MONCHAUD,M.JOURDAN,N.SAETTEL, AUTHOR 2 J.L.MERGNY,M.TEULADE-FICHOU REVDAT 2 24-FEB-09 2JWQ 1 VERSN REVDAT 1 25-MAR-08 2JWQ 0 JRNL AUTH C.HOUNSOU,L.GUITTAT,D.MONCHAUD,M.JOURDAN,N.SAETTEL, JRNL AUTH 2 J.L.MERGNY,M.TEULADE-FICHOU JRNL TITL G-QUADRUPLEX RECOGNITION BY QUINACRIDINES: A SAR, JRNL TITL 2 NMR, AND BIOLOGICAL STUDY JRNL REF CHEMMEDCHEM V. 2 655 2007 JRNL REFN ISSN 1860-7179 JRNL PMID 17385760 JRNL DOI 10.1002/CMDC.200600286 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER 2004.1 REMARK 3 AUTHORS : ACCELRYS SOFTWARE INC. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2JWQ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-OCT-07. REMARK 100 THE RCSB ID CODE IS RCSB100386. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 318 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 0.1 M KCL AND 0.01 M K2HPO4 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1,3 MM G-QUADRUPLEX, 90% H2O/ REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY, 2D DQF-COSY, REMARK 210 2D 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 4 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 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: 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 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 DG B 11 C5' DG B 11 C4' 0.043 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 DA A 3 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DG A 4 O4' - C1' - N9 ANGL. DEV. = 7.1 DEGREES REMARK 500 DG A 6 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT A 7 O4' - C1' - N1 ANGL. DEV. = 5.2 DEGREES REMARK 500 DA B 10 O4' - C1' - N9 ANGL. DEV. = 5.1 DEGREES REMARK 500 DG B 11 C4' - C3' - C2' ANGL. DEV. = -4.2 DEGREES REMARK 500 DG B 11 O4' - C1' - N9 ANGL. DEV. = 5.2 DEGREES REMARK 500 DG B 13 O4' - C1' - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 DT B 14 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG C 18 O4' - C1' - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG C 20 O4' - C1' - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 DT C 21 O4' - C1' - N1 ANGL. DEV. = 4.1 DEGREES REMARK 500 DT C 21 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 DA D 24 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DG D 25 O4' - C1' - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG D 27 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 DT D 28 O4' - C1' - N1 ANGL. DEV. = 3.9 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 DG A 6 0.06 SIDE_CHAIN REMARK 500 DT A 7 0.08 SIDE_CHAIN REMARK 500 DG C 18 0.09 SIDE_CHAIN REMARK 500 DG C 20 0.09 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MM0 B 29 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MM0 B 30 DBREF 2JWQ A 1 7 PDB 2JWQ 2JWQ 1 7 DBREF 2JWQ B 8 14 PDB 2JWQ 2JWQ 1 7 DBREF 2JWQ C 15 21 PDB 2JWQ 2JWQ 1 7 DBREF 2JWQ D 22 28 PDB 2JWQ 2JWQ 1 7 SEQRES 1 A 7 DT DT DA DG DG DG DT SEQRES 1 B 7 DT DT DA DG DG DG DT SEQRES 1 C 7 DT DT DA DG DG DG DT SEQRES 1 D 7 DT DT DA DG DG DG DT HET MM0 B 29 62 HET MM0 B 30 62 HETNAM MM0 N,N'-(DIBENZO[B,J][1,7]PHENANTHROLINE-2,10- HETNAM 2 MM0 DIYLDIMETHANEDIYL)DIPROPAN-1-AMINE FORMUL 5 MM0 2(C28 H30 N4) SITE 1 AC1 8 DA A 3 DG A 4 DA B 10 DG B 11 SITE 2 AC1 8 DT D 23 DA D 24 DG D 25 DG D 26 SITE 1 AC2 10 DG A 5 DG A 6 DT A 7 DG B 11 SITE 2 AC2 10 DG B 12 DG B 13 DT B 14 DT C 21 SITE 3 AC2 10 DG D 27 DT D 28 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 MASTER 129 0 2 0 0 0 5 6 0 0 0 4 END