1QDJ - Header Asymmetric Unit

HEADER TELOMERE DNA DUPLEX 11-APR-96 1QDJ

TITLE DNA QUADRUPLEX STRUCTURE, (12MER) DNA, THEORETICAL MODEL

COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (12MER, D(GGGGTTTTGGG)); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: PREDICTED STRUCTURE

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES

KEYWDS QUDRAPLEX DNA, MN BINDING DNA, NON-THROMBIN INHIBITOR, KEYWDS 2 TELOMERE DNA DUPLEX

EXPDTA THEORETICAL MODEL

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

REVDAT 1 08-NOV-96 1QDJ 0

JRNL AUTH V.M.MARATHIAS,K.Y.WANG,S.KUMAR,S.SWAMINATHAN, JRNL AUTH 2 P.H.BOLTON JRNL TITL DETERMINATION OF THE NUMBER AND LOCATION OF THE JRNL TITL 2 MANGANESE BINDING SITES OF DNA QUADRAPLEXES IN JRNL TITL 3 SOLUTION BY EPR AND NMR IN THE PRESCENCE AND JRNL TITL 4 ABSENCE OF THROMBIN JRNL REF TO BE PUBLISHED JRNL REFN

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1QDJ COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998

REMARK 102 REMARK 102 BASES G A 1 AND G B 4 ARE MISPAIRED. REMARK 102 BASES G A 1 AND G B 9 ARE MISPAIRED. REMARK 102 BASES G A 1 AND G B 10 ARE MISPAIRED. REMARK 102 BASES G A 2 AND G B 3 ARE MISPAIRED. REMARK 102 BASES G A 2 AND G B 10 ARE MISPAIRED. REMARK 102 BASES G A 3 AND G B 2 ARE MISPAIRED. REMARK 102 BASES G A 3 AND G B 11 ARE MISPAIRED. REMARK 102 BASES G A 4 AND G B 1 ARE MISPAIRED. REMARK 102 BASES G A 4 AND G B 12 ARE MISPAIRED. REMARK 102 BASES T A 5 AND T A 7 ARE MISPAIRED. REMARK 102 BASES T A 5 AND G B 1 ARE MISPAIRED. REMARK 102 BASES G A 9 AND G B 1 ARE MISPAIRED. REMARK 102 BASES G A 9 AND G B 12 ARE MISPAIRED. REMARK 102 BASES G A 10 AND G B 2 ARE MISPAIRED. REMARK 102 BASES G A 10 AND G B 11 ARE MISPAIRED. REMARK 102 BASES G A 11 AND G B 3 ARE MISPAIRED. REMARK 102 BASES G A 11 AND G B 10 ARE MISPAIRED. REMARK 102 BASES G A 12 AND G B 4 ARE MISPAIRED. REMARK 102 BASES G A 12 AND T B 5 ARE MISPAIRED. REMARK 102 BASES G A 12 AND G B 9 ARE MISPAIRED. REMARK 102 BASES T B 5 AND T B 7 ARE MISPAIRED. REMARK 102 BASES T B 6 AND T B 8 ARE MISPAIRED.

REMARK 103 REMARK 103 THERE ARE NON-WATSON-CRICK HYDROGEN BONDS BETWEEN THE REMARK 103 FOLLOWING ATOMS: REMARK 103 N7 G A 1 AND N2 G B 4 REMARK 103 O6 G A 1 AND N1 G B 4 REMARK 103 N1 G A 1 AND O6 G B 9 REMARK 103 N2 G A 1 AND N7 G B 9 REMARK 103 N1 G A 1 AND O6 G B 10 REMARK 103 N1 G A 2 AND O6 G B 3 REMARK 103 N2 G A 2 AND N7 G B 3 REMARK 103 N7 G A 2 AND N2 G B 10 REMARK 103 O6 G A 2 AND N1 G B 10 REMARK 103 N7 G A 3 AND N2 G B 2 REMARK 103 O6 G A 3 AND N1 G B 2 REMARK 103 N1 G A 3 AND O6 G B 11 REMARK 103 N2 G A 3 AND N7 G B 11 REMARK 103 N1 G A 4 AND O6 G B 1 REMARK 103 N2 G A 4 AND N7 G B 1 REMARK 103 N7 G A 4 AND N2 G B 12 REMARK 103 O6 G A 4 AND N1 G B 12 REMARK 103 N3 T A 5 AND O2 T A 7 REMARK 103 O2 T A 5 AND N3 T A 7 REMARK 103 N3 T A 5 AND O6 G B 1 REMARK 103 N7 G A 9 AND N2 G B 1 REMARK 103 O6 G A 9 AND N1 G B 1 REMARK 103 N1 G A 9 AND O6 G B 12 REMARK 103 N2 G A 9 AND N7 G B 12 REMARK 103 N1 G A 10 AND O6 G B 2 REMARK 103 N2 G A 10 AND N7 G B 2 REMARK 103 N7 G A 10 AND N2 G B 11 REMARK 103 O6 G A 10 AND N1 G B 11 REMARK 103 N7 G A 11 AND N2 G B 3 REMARK 103 O6 G A 11 AND N1 G B 3 REMARK 103 N1 G A 11 AND O6 G B 10 REMARK 103 N2 G A 11 AND N7 G B 10 REMARK 103 N1 G A 12 AND O6 G B 4 REMARK 103 N2 G A 12 AND N7 G B 4 REMARK 103 N1 G A 12 AND O4 T B 5 REMARK 103 N7 G A 12 AND N2 G B 9 REMARK 103 O6 G A 12 AND N1 G B 9 REMARK 103 N3 T B 5 AND O2 T B 7 REMARK 103 O2 T B 5 AND N3 T B 7 REMARK 103 N3 T B 6 AND O4 T B 8

REMARK 105 REMARK 105 THE PROTEIN DATA BANK HAS ADOPTED THE SACCHARIDE CHEMISTS REMARK 105 NOMENCLATURE FOR ATOMS OF THE DEOXYRIBOSE/RIBOSE MOIETY REMARK 105 RATHER THAN THAT OF THE NUCLEOSIDE CHEMISTS. THE RING REMARK 105 OXYGEN ATOM IS LABELLED O4* INSTEAD OF O1*.

REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: THE REFINED SOLUTION STRUCTURE OF THE DNA APTAMER WAS REMARK 220 USED TO PREDICT THE ELECTROSTATIC POTENTIAL. THE REMARK 220 CALCULATED ELECTROSTATIC POTENTIAL WAS THEN USED TO REMARK 220 PREDICT THE MN BINDING SITES.

REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS.

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 1QDI (12 MER) AND 1QDJ (12 MER COMPLEX SOLUTION STRUCTURE)

DBREF 1QDJ A 1 12 PDB 1QDJ 1QDJ 1 12 DBREF 1QDJ B 1 12 PDB 1QDJ 1QDJ 1 12

SEQRES 1 A 12 G G G G T T T T G G G G SEQRES 1 B 12 G G G G T T T T G G G G

HET MN 1 1 HET MN 2 1

HETNAM MN MANGANESE (II) ION

FORMUL 3 MN 2(MN 2+)

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