1QDF - Header Asymmetric Unit

HEADER DNA 11-APR-96 1QDF

TITLE THE NMR STUDY OF DNA QUADRUPLEX STRUCTURE, APTAMER (15MER) TITLE 2 DNA

COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(*GP*GP*TP*TP*GP*GP*TP*GP*TP*GP*GP*TP*TP*GP*G)-3'); COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES

KEYWDS QUDRAPLEX DNA, THROMBIN INHIBITOR, MN BINDING DNA, TELOMERE KEYWDS 2 DNA

EXPDTA SOLUTION NMR

AUTHOR V.M.MARATHIAS,K.Y.WANG,S.KUMAR,S.SWAMINATHAN,P.H.BOLTON

REVDAT 2 24-FEB-09 1QDF 1 VERSN REVDAT 1 08-NOV-96 1QDF 0

JRNL AUTH V.M.MARATHIAS,K.Y.WANG,S.KUMAR,T.Q.PHAM, JRNL AUTH 2 S.SWAMINATHAN,P.H.BOLTON JRNL TITL DETERMINATION OF THE NUMBER AND LOCATION OF THE JRNL TITL 2 MANGANESE BINDING SITES OF DNA QUADRUPLEXES IN JRNL TITL 3 SOLUTION BY EPR AND NMR IN THE PRESENCE AND JRNL TITL 4 ABSENCE OF THROMBIN. JRNL REF J.MOL.BIOL. V. 260 378 1996 JRNL REFN ISSN 0022-2836 JRNL PMID 8757801 JRNL DOI 10.1006/JMBI.1996.0408

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1QDF COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.

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 : MINIMIZED AVERAGE 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 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 DT A 3 C5 DT A 3 C7 0.036 REMARK 500 DT A 7 C5 DT A 7 C7 0.037 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 DG A 1 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 DG A 2 O4' - C1' - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DT A 3 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DT A 3 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 DT A 4 O4' - C1' - N1 ANGL. DEV. = 5.8 DEGREES REMARK 500 DT A 4 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 DG A 5 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG A 6 O4' - C1' - N9 ANGL. DEV. = 5.0 DEGREES REMARK 500 DG A 5 C3' - O3' - P ANGL. DEV. = 7.2 DEGREES REMARK 500 DT A 7 O4' - C1' - N1 ANGL. DEV. = 6.1 DEGREES REMARK 500 DG A 8 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DT A 7 C3' - O3' - P ANGL. DEV. = 8.4 DEGREES REMARK 500 DT A 9 O4' - C1' - N1 ANGL. DEV. = 5.2 DEGREES REMARK 500 DG A 10 O4' - C1' - N9 ANGL. DEV. = 5.2 DEGREES REMARK 500 DT A 9 C3' - O3' - P ANGL. DEV. = 8.0 DEGREES REMARK 500 DG A 11 O4' - C1' - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 DT A 12 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 DT A 12 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 DT A 13 O4' - C1' - N1 ANGL. DEV. = 5.6 DEGREES REMARK 500 DG A 14 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 DG A 14 C3' - O3' - P ANGL. DEV. = 8.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1C32 RELATED DB: PDB REMARK 900 ENSEMBLE OF 10 STRUCTURES REMARK 900 RELATED ID: 1QDG RELATED DB: PDB REMARK 900 THEORETICAL MODEL REMARK 900 RELATED ID: 1QDH RELATED DB: PDB REMARK 900 MINIMIZED AVERAGE STRUCTURE

DBREF 1QDF A 1 15 PDB 1QDF 1QDF 1 15

SEQRES 1 A 15 DG DG DT DT DG DG DT DG DT DG DG DT DT SEQRES 2 A 15 DG 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