HEADER DNA 29-MAR-02 1LAQ TITLE SOLUTION STRUCTURE OF THE B-DNA DUPLEX CGCGGTXTCCGCG TITLE 2 (X=PDG) CONTAINING THE 1,N2-PROPANODEOXYGUANOSINE ADDUCT TITLE 3 WITH THE DEOXYRIBOSE AT C20 OPPOSITE PDG IN THE C2' ENDO TITLE 4 CONFORMATION. COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*GP*CP*GP*GP*TP*(P)P*TP*CP*CP*GP*CP*G)- COMPND 3 3'; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-D(*CP*GP*CP*GP*GP*AP*(DNR)P*AP*CP*CP*GP*CP*G)- COMPND 8 3'; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SYNTHETIC DNA SEQUENCE WAS DERIVED SOURCE 4 FROM THE HISD3052 GENE OF SALMONELLA TYPHIMURIUM.; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 OTHER_DETAILS: THIS SYNTHETIC DNA SEQUENCE WAS DERIVED SOURCE 8 FROM THE HISD3052 GENE OF SALMONELLA TYPHIMURIUM. KEYWDS DNA, B-TYPE, NMR, PROPANODEOXYGUANOSINE EXPDTA SOLUTION NMR MDLTYP MINIMIZED AVERAGE AUTHOR J.P.WEISENSEEL,G.R.REDDY,L.J.MARNETT,M.P.STONE REVDAT 2 24-FEB-09 1LAQ 1 VERSN REVDAT 1 17-APR-02 1LAQ 0 JRNL AUTH J.P.WEISENSEEL,G.R.REDDY,L.J.MARNETT,M.P.STONE JRNL TITL STRUCTURE OF AN OLIGODEOXYNUCLEOTIDE CONTAINING A JRNL TITL 2 1,N(2)-PROPANODEOXYGUANOSINE ADDUCT POSITIONED IN JRNL TITL 3 A PALINDROME DERIVED FROM THE SALMONELLA JRNL TITL 4 TYPHIMURIUM HISD3052 GENE: HOOGSTEEN PAIRING AT PH JRNL TITL 5 5.2. JRNL REF CHEM.RES.TOXICOL. V. 15 127 2002 JRNL REFN ISSN 0893-228X JRNL PMID 11849038 JRNL DOI 10.1021/TX0101090 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.8 REMARK 3 AUTHORS : BRUNGER, A. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1LAQ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-APR-02. REMARK 100 THE RCSB ID CODE IS RCSB015796. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303; 278 REMARK 210 PH : 5.2; 5.2 REMARK 210 IONIC STRENGTH : 100 MM NACL; 100 MM NACL REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1.8 MM DNA STRAND, 10 MM REMARK 210 SODIUM PHOSPHATE, 100 MM NACL, REMARK 210 50 UM EDTA; 1.8 MM DNA STRAND, REMARK 210 1 MM SODIUM PHOSPHATE, 100 MM REMARK 210 NACL, 50 UM EDTA REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, DQF-COSY, 31P-1H REMARK 210 COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : UXNMR 3.0, FELIX 97.0, 2000, REMARK 210 MARDIGRAS 3.2 REMARK 210 METHOD USED : MOLECULAR DYNAMICS USING A REMARK 210 SIMULATED ANNEALING PROTOCOL. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL 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 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. = 2.6 DEGREES REMARK 500 DG A 2 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG A 2 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DC A 3 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG A 4 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG A 4 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG A 4 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DG A 5 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 DG A 5 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DG A 5 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DT A 6 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT A 8 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DC A 9 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC A 10 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG A 11 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG A 11 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 DG A 11 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 DC A 12 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG A 13 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DG A 13 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DG A 13 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 DC B 14 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG B 15 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG B 15 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 DG B 15 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 DC B 16 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DG B 17 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DG B 17 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG B 17 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DG B 18 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DG B 18 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DG B 18 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DA B 19 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA B 19 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA B 21 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DA B 21 N7 - C8 - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 DC B 22 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DC B 23 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG B 24 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DG B 24 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 DG B 24 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 DC B 25 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG B 26 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DG B 26 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DG B 26 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1LA8 RELATED DB: PDB REMARK 900 1LA8 IS THE SOLUTION STRUCTURE OF THE DNA 13-MER HAIRPIN REMARK 900 CGCGGTGTCCGCG REMARK 900 RELATED ID: 1LAE RELATED DB: PDB REMARK 900 1LAE IS THE SOLUTION STRUCTURE OF THE DNA 13-MER HAIRPIN REMARK 900 CGCGGTXTCCGCG (X=PDG) CONTAINING THE 1,N2- REMARK 900 PROPANODEOXYGUANOSINE ADDUCT AT THE SEVENTH POSITION. REMARK 900 RELATED ID: 1LAI RELATED DB: PDB REMARK 900 1LAI IS THE SOLUTION STRUCTURE OF THE B-DNA DUPLEX REMARK 900 CGCGGTGTCCGCG REMARK 900 RELATED ID: 1LAS RELATED DB: PDB REMARK 900 1LAS IS THE SOLUTION STRUCTURE OF THE B-DNA DUPLEX REMARK 900 CGCGGTXTCCGCG (X=PDG) CONTAINING THE 1,N2- REMARK 900 PROPANODEOXYGUANOSINE ADDUCT WITH THE DEOXYRIBOSE AT C20 REMARK 900 OPPOSITE PDG IN THE C3' ENDO CONFORMATION. DBREF 1LAQ A 1 13 PDB 1LAQ 1LAQ 1 13 DBREF 1LAQ B 14 26 PDB 1LAQ 1LAQ 14 26 SEQRES 1 A 13 DC DG DC DG DG DT P DT DC DC DG DC DG SEQRES 1 B 13 DC DG DC DG DG DA DNR DA DC DC DG DC DG MODRES 1LAQ P A 7 DG MODRES 1LAQ DNR B 20 DC HET P A 7 40 HET DNR B 20 31 HETNAM P 2'-DEOXY-N1,N2-PROPANO GUANOSINE MONOPHOSPHATE HETNAM DNR 2'-DEOXY-N3-PROTONATED CYTIDINE-5'-MONOPHOSPHATE FORMUL 1 P C13 H18 N5 O7 P FORMUL 2 DNR C9 H15 N3 O7 P 1+ LINK O3' DT A 6 P P A 7 1555 1555 1.62 LINK O3' P A 7 P DT A 8 1555 1555 1.61 LINK O3' DA B 19 P DNR B 20 1555 1555 1.62 LINK O3' DNR B 20 P DA B 21 1555 1555 1.61 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 MASTER 132 0 2 0 0 0 0 6 0 0 0 2 END