1AGZ - Header Asymmetric Unit

HEADER DNA 26-MAR-97 1AGZ

TITLE THE SOLUTION NMR STRUCTURE OF AN (R)-A-(N6-ADENYL)-STYRENE TITLE 2 OXIDE-RAS61 OLIGODEOXYNUCLEOTIDE MODIFIED AT THE THIRD TITLE 3 POSITION OF THE CODON 61 REGION, MINIMIZED AVERAGE TITLE 4 STRUCTURE

COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*CP*GP*GP*AP*CP*AP*RP*GP*AP*AP*G)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: (R)-(N6-ADENYL)-STYRENE OXIDE-RAS61-3 DNA COMPND 6 ADDUCT; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(*CP*TP*TP*CP*TP*TP*GP*TP*CP*CP*G)-3'); COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 OTHER_DETAILS: (R)-(N6-ADENYL)-STYRENE OXIDE-RAS61-3 DNA COMPND 12 ADDUCT

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES

KEYWDS DNA DUPLEX, B-DNA, NMR, HUMAN N-RAS GENE, CODON 61 SEQUENCE, KEYWDS 2 R-STYRENE OXIDE ADDUCT, N6-ADENINE, MAJOR GROOVE, KEYWDS 3 DEOXYRIBONUCLEIC ACID

EXPDTA SOLUTION NMR

AUTHOR B.FENG,M.P.STONE

REVDAT 2 24-FEB-09 1AGZ 1 VERSN REVDAT 1 20-AUG-97 1AGZ 0

JRNL AUTH B.FENG,L.ZHOU,M.PASSARELLI,C.M.HARRIS,T.M.HARRIS, JRNL AUTH 2 M.P.STONE JRNL TITL MAJOR GROOVE (R)-ALPHA-(N6-ADENYL)STYRENE OXIDE JRNL TITL 2 ADDUCTS IN AN OLIGODEOXYNUCLEOTIDE CONTAINING THE JRNL TITL 3 HUMAN N-RAS CODON 61 SEQUENCE: CONFORMATIONS OF JRNL TITL 4 THE R(61,2) AND R(61,3) SEQUENCE ISOMERS FROM 1H JRNL TITL 5 NMR. JRNL REF BIOCHEMISTRY V. 34 14021 1995 JRNL REFN ISSN 0006-2960 JRNL PMID 7578000 JRNL DOI 10.1021/BI00043A008

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH B.FENG,M.P.STONE REMARK 1 TITL SOLUTION STRUCTURE OF AN OLIGODEOXYNUCLEOTIDE REMARK 1 TITL 2 CONTAINING THE HUMAN N-RAS CODON 61 SEQUENCE REMARK 1 TITL 3 REFINED FROM 1H NMR USING MOLECULAR DYNAMICS REMARK 1 TITL 4 RESTRAINED BY NUCLEAR OVERHAUSER EFFECTS REMARK 1 REF CHEM.RES.TOXICOL. V. 8 821 1995 REMARK 1 REFN ISSN 0893-228X

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN REMARK 3 THE JRNL CITATION ABOVE.

REMARK 4 REMARK 4 1AGZ 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) : 293 REMARK 210 PH : 6.9 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY, 2QF-COSY, AND TOCSY, : REMARK 210 NOESY, AND(DO, 05'-D REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : AMX500 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX, X-PLOR, MARDIGRAS, REMARK 210 CORMA REMARK 210 METHOD USED : NOE-RESTRAINED MOLECULAR REMARK 210 DYNAMICS/SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : THIS STRUCTURE PROVIDED THE REMARK 210 BEST-FIT FOR THE NOE DATA REMARK 210 BASED ON THE RELAXATION MATRIX REMARK 210 ANALYSIS USING CORMA 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 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 DC A 1 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG A 2 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DG A 2 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DG A 2 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DG A 3 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG A 3 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG A 3 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 DA A 4 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA A 4 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DC A 5 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA A 6 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DA A 6 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 DG A 8 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DG A 8 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG A 8 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 DA A 9 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 DA A 9 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA A 10 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DA A 10 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG A 11 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG A 11 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG A 11 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DC B 12 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DT B 13 OP1 - P - OP2 ANGL. DEV. = -13.4 DEGREES REMARK 500 DT B 13 O5' - P - OP1 ANGL. DEV. = -34.8 DEGREES REMARK 500 DT B 13 O5' - P - OP2 ANGL. DEV. = 12.3 DEGREES REMARK 500 DT B 13 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT B 13 C6 - C5 - C7 ANGL. DEV. = -4.1 DEGREES REMARK 500 DT B 13 O3' - P - O5' ANGL. DEV. = -36.8 DEGREES REMARK 500 DT B 13 O3' - P - OP1 ANGL. DEV. = 27.3 DEGREES REMARK 500 DT B 14 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DT B 14 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 DC B 15 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DT B 16 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DT B 16 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 DT B 17 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DT B 17 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 DG B 18 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG B 18 N7 - C8 - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 DG B 18 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 DT B 19 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DC B 20 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DC B 21 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DG B 22 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 DG B 22 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG B 22 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AGK RELATED DB: PDB REMARK 900 MINIMIZED AVERAGE STRUCTURE REMARK 900 RELATED ID: 1AGO RELATED DB: PDB REMARK 900 MINIMIZED AVERAGE STRUCTURE

DBREF 1AGZ A 1 11 PDB 1AGZ 1AGZ 1 11 DBREF 1AGZ B 12 22 PDB 1AGZ 1AGZ 12 22

SEQRES 1 A 11 DC DG DG DA DC DA R DG DA DA DG SEQRES 1 B 11 DC DT DT DC DT DT DG DT DC DC DG

MODRES 1AGZ R A 7 DA

HET R A 7 49

HETNAM R 2'-DEOXY-N6-(R)STYRENE OXIDE ADENOSINE MONOPHOSPHATE

FORMUL 1 R C18 H22 N5 O7 P

LINK P R A 7 O3' DA A 6 1555 1555 1.61 LINK O3' R A 7 P DG A 8 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