170D - Header Asymmetric Unit

HEADER DNA 14-MAR-94 170D

TITLE SOLUTION STRUCTURE OF A DNA DODECAMER CONTAINING THE ANTI- TITLE 2 NEOPLASTIC AGENT ARABINOSYLCYTOSINE: COMBINED USE OF NMR, TITLE 3 RESTRAINED MOLECULAR DYNAMICS AND FULL RELAXATION MATRIX TITLE 4 REFINEMENT

COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA/RNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*T)-R(P*CAR)- COMPND 3 D(P*GP*CP*G)-3'); COMPND 4 CHAIN: A, B; COMPND 5 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: CHEMICALLY SYNTHESIZED

KEYWDS DNA

EXPDTA SOLUTION NMR

AUTHOR B.I.SCHWEITZER,T.MIKITA,G.W.KELLOGG,K.H.GARDNER, AUTHOR 2 G.P.BEARDSLEY

REVDAT 4 24-FEB-09 170D 1 VERSN REVDAT 3 01-APR-03 170D 1 JRNL REVDAT 2 15-JAN-95 170D 1 COMPND SEQRES REVDAT 1 31-JUL-94 170D 0

JRNL AUTH B.I.SCHWEITZER,T.MIKITA,G.W.KELLOGG,K.H.GARDNER, JRNL AUTH 2 G.P.BEARDSLEY JRNL TITL SOLUTION STRUCTURE OF A DNA DODECAMER CONTAINING JRNL TITL 2 THE ANTI-NEOPLASTIC AGENT ARABINOSYLCYTOSINE: JRNL TITL 3 COMBINED USE OF NMR, RESTRAINED MOLECULAR JRNL TITL 4 DYNAMICS, AND FULL RELAXATION MATRIX REFINEMENT. JRNL REF BIOCHEMISTRY V. 33 11460 1994 JRNL REFN ISSN 0006-2960 JRNL PMID 7918360 JRNL DOI 10.1021/BI00204A008

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: STRUCTURES WERE GENERATED IN THE REMARK 3 FOLLOWING MANNER: RESTRAINED MOLECULAR DYNAMICS WAS PERFORMED REMARK 3 WITH EXPERIMENTAL DISTANCE AND DIHEDRAL RESTRAINTS GENERATED REMARK 3 FROM NOESY AND COSY NMR DATA. THREE STRUCTURES WERE GENERATED REMARK 3 STARTING FROM CANONICAL A-TYPE DNA AND THREE STRUCTURES REMARK 3 STARTING FROM CANONICAL B-TYPE DNA. FOR BOTH CONTROL AND ARAC REMARK 3 STRUCTURES, THE RMSD OF THE SIX STRUCTURES WAS < 0.7 ANGSTROM. REMARK 3 THE SIX STRUCTURES WERE AVERAGED, MINIMIZED AND REFINED USING REMARK 3 RELAXATION MATRIX REFINEMENT IN A DYNAMICAL SIMULATED REMARK 3 ANNEALING PROTOCOL. THE X-PLOR DISTANCE CONSTRAINT AND SUGAR REMARK 3 DIHEDRAL CONSTRAINT TABLES USED IN THE RESTRAINED MOLECULAR REMARK 3 DYNAMICS CALCULATIONS FOR THE ARAC-CONTAINING DODECAMER ARE REMARK 3 AVAILABLE FROM THE PROTEIN DATA BANK AS A SEPARATE ENTRY.

REMARK 4 REMARK 4 170D 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 : MOLECULAR DYNAMICS, MATRIX REMARK 210 RELAXATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 6 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL 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 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 171D RELATED DB: PDB

DBREF 170D A 1 12 PDB 170D 170D 1 12 DBREF 170D B 13 24 PDB 170D 170D 13 24

SEQRES 1 A 12 DC DG DC DG DA DA DT DT CAR DG DC DG SEQRES 1 B 12 DC DG DC DG DA DA DT DT CAR DG DC DG

MODRES 170D CAR A 9 DC CYTOSINE ARABINOSE-5'-PHOSPHATE MODRES 170D CAR B 21 DC CYTOSINE ARABINOSE-5'-PHOSPHATE

HET CAR A 9 31 HET CAR B 21 31

HETNAM CAR CYTOSINE ARABINOSE-5'-PHOSPHATE

FORMUL 1 CAR 2(C9 H14 N3 O8 P)

LINK O3' DT A 8 P CAR A 9 1555 1555 1.61 LINK O3' CAR A 9 P DG A 10 1555 1555 1.60 LINK O3' DT B 20 P CAR B 21 1555 1555 1.61 LINK O3' CAR B 21 P DG B 22 1555 1555 1.60

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