HEADER DNA 12-FEB-09 2KF7 TITLE STRUCTURE OF A TWO-G-TETRAD BASKET-TYPE INTRAMOLECULAR G- TITLE 2 QUADRUPLEX FORMED BY HUMAN TELOMERIC REPEATS IN K+ TITLE 3 SOLUTION (WITH G7-TO-BRG SUBSTITUTION) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HUMAN TELOMERE DNA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: NUCLEOTIDE SYNTHESIS KEYWDS ANTICANCER TARGETS, HUMAN TELOMERE, INTRAMOLECULAR G- KEYWDS 2 QUADRUPLEXES, DNA EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR K.W.LIM,S.AMRANE,S.BOUAZIZ,W.XU,Y.MU,D.J.PATEL,K.N.LUU, AUTHOR 2 A.T.PHAN REVDAT 2 07-APR-09 2KF7 1 JRNL REVDAT 1 24-MAR-09 2KF7 0 JRNL AUTH K.W.LIM,S.AMRANE,S.BOUAZIZ,W.XU,Y.MU,D.J.PATEL, JRNL AUTH 2 K.N.LUU,A.T.PHAN JRNL TITL STRUCTURE OF THE HUMAN TELOMERE IN K+ SOLUTION: A JRNL TITL 2 STABLE BASKET-TYPE G-QUADRUPLEX WITH ONLY TWO JRNL TITL 3 G-TETRAD LAYERS JRNL REF J.AM.CHEM.SOC. V. 131 4301 2009 JRNL REFN ISSN 0002-7863 JRNL PMID 19271707 JRNL DOI 10.1021/JA807503G REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR_NIH 2.21 REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA, CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KF7 COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-FEB-09. REMARK 100 THE RCSB ID CODE IS RCSB101046. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 283 REMARK 210 PH : 7; 5 REMARK 210 IONIC STRENGTH : NULL; NULL REMARK 210 PRESSURE : NULL; NULL REMARK 210 SAMPLE CONTENTS : 0.5-2.5MM DNA (5'-D(*DGP*DGP* REMARK 210 DGP*DTP*DTP*DAP*(BGM)P*DGP*DGP*DTP*DTP*DAP*DGP*DGP*DGP*DTP* REMARK 210 DTP*DAP*DGP*DGP*DGP*DT)-3')-1, 70MM POTASSIUM CHLORIDE-2, 20MM REMARK 210 POTASSIUM PHOSPHATE-3, 90% H2O/10% D2O; 0.5-2.5MM DNA (5'-D(* REMARK 210 DGP*DGP*DGP*DTP*DTP*DAP*(BGM)P*DGP*DGP*DTP*DTP*DAP*DGP*DGP* REMARK 210 DGP*DTP*DTP*DAP*DGP*DGP*DGP*DT)-3')-4, 70MM POTASSIUM CHLORIDE REMARK 210 -5, 20MM POTASSIUM PHOSPHATE-6, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-13C HSQC, 2D 1H-1H REMARK 210 TOCSY, 2D 1H-1H COSY, 2D 1H-1H REMARK 210 NOESY, 2D 1H-15N HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ, 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE, INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER, VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 2007, TOPSPIN, X-PLOR_ REMARK 210 NIH 2.21 REMARK 210 METHOD USED : MATRIX RELAXATION, MOLECULAR REMARK 210 DYNAMICS, DGSA-DISTANCE REMARK 210 GEOMETRY SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : BACK CALCULATED DATA AGREE REMARK 210 WITH EXPERIMENTAL NOESY REMARK 210 SPECTRUM 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 2 DA A 12 C5' DA A 12 C4' 0.044 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 1 DT A 4 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 2 DT A 4 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 8 DT A 4 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 9 DT A 16 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 143D RELATED DB: PDB REMARK 900 HUMAN TELOMERE DNA SOLUTION STRUCTURE IN THE PRESENCE OF NA REMARK 900 RELATED ID: 1K8P RELATED DB: PDB REMARK 900 HUMAN TELOMERE DNA CRYSTAL STRUCTURE IN THE PRESENCE OF K REMARK 900 RELATED ID: 2GKU RELATED DB: PDB REMARK 900 END-MODIFIED HUMAN TELOMERE DNA CRYSTAL STRUCTURE IN THE REMARK 900 PRESENCE OF K REMARK 900 RELATED ID: 2AQY RELATED DB: PDB REMARK 900 3 REPEATS OF HUMAN TELOMERE DNA SOLUTION STRUCTURE REMARK 900 RELATED ID: 2JSK RELATED DB: PDB REMARK 900 HUMAN TELOMERE DNA SOLUTION STRUCTURE IN THE PRESENCE OF K REMARK 900 CATIONS 16BRG FORM 1 REMARK 900 RELATED ID: 2JSL RELATED DB: PDB REMARK 900 HUMAN TELOMERE DNA SOLUTION STRUCTURE IN THE PRESENCE OF K REMARK 900 CATIONS NATURAL FORM 2 REMARK 900 RELATED ID: 2JSM RELATED DB: PDB REMARK 900 HUMAN TELOMERE DNA SOLUTION STRUCTURE IN THE PRESENCE OF K REMARK 900 CATIONS NATURAL FORM 1 REMARK 900 RELATED ID: 2JSQ RELATED DB: PDB REMARK 900 HUMAN TELOMERE DNA SOLUTION STRUCTURE IN THE PRESENCE OF K REMARK 900 CATIONS FORM 2 15BRG REMARK 900 RELATED ID: 2KF8 RELATED DB: PDB REMARK 900 STRUCTURE OF A TWO-G-TETRAD BASKET-TYPE INTRAMOLECULAR G- REMARK 900 QUADRUPLEX FORMED BY HUMAN TELOMERIC REPEATS IN K+ SOLUTION DBREF 2KF7 A 1 22 PDB 2KF7 2KF7 1 22 SEQRES 1 A 22 DG DG DG DT DT DA BGM DG DG DT DT DA DG SEQRES 2 A 22 DG DG DT DT DA DG DG DG DT MODRES 2KF7 BGM A 7 DG HET BGM A 7 33 HETNAM BGM 8-BROMO-2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE FORMUL 1 BGM C10 H13 BR N5 O7 P LINK O3' DA A 6 P BGM A 7 1555 1555 1.62 LINK O3' BGM A 7 P DG A 8 1555 1555 1.62 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