10 20 30 40 50 60 70 80 1AX7 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA 30-OCT-97 1AX7
TITLE SOLUTION STRUCTURE OF THE [AF]-C8-DG ADDUCT POSITIONED AT A TITLE 2 TEMPLATE-PRIMER JUNCTION, NMR, 6 STRUCTURES
COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA DUPLEX D(AAC-[AF]G-CTACCATCC)D(GGATGGTAG); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: N ATOM OF AF-GROUP LINKED TO C8 ATOM OF DG4; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA DUPLEX D(AAC-[AF]G-CTACCATCC)D(GGATGGTAG); COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: N ATOM OF AF-GROUP LINKED TO C8 ATOM OF DG4
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES
KEYWDS DNA DUPLEX, AMINOFLUORENE ADDUCT, CARCINOGEN ADDUCT, KEYWDS 2 TEMPLATE-PRIMER JUNCTION
EXPDTA SOLUTION NMR
NUMMDL 6
AUTHOR B.MAO,Z.GU,A.A.GORIN,B.E.HINGERTY,S.BROYDE,D.J.PATEL
REVDAT 2 24-FEB-09 1AX7 1 VERSN REVDAT 1 01-JUL-98 1AX7 0
JRNL AUTH B.MAO,Z.GU,A.GORIN,B.E.HINGERTY,S.BROYDE,D.J.PATEL JRNL TITL SOLUTION STRUCTURE OF THE AMINOFLUORENE-STACKED JRNL TITL 2 CONFORMER OF THE SYN [AF]-C8-DG ADDUCT POSITIONED JRNL TITL 3 AT A TEMPLATE-PRIMER JUNCTION. JRNL REF BIOCHEMISTRY V. 36 14491 1997 JRNL REFN ISSN 0006-2960 JRNL PMID 9398168 JRNL DOI 10.1021/BI972206R
REMARK 1
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 1AX7 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) : 322 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY, COSY, TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ, 600 MHZ REMARK 210 SPECTROMETER MODEL : VARIAN UNITY PLUS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR, DUPLEX, X-PLOR REMARK 210 METHOD USED : RELAXATION MATRIX REFINEMENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 6 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 6 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CONFORMERS PRESENTED 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 1 DG A 4 C8 DG A 4 N9 -0.049 REMARK 500 1 DC A 5 N1 DC A 5 C6 -0.039 REMARK 500 1 DT A 6 C5 DT A 6 C7 0.043 REMARK 500 1 DC A 8 C5' DC A 8 C4' 0.049 REMARK 500 1 DT A 11 C5 DT A 11 C7 0.040 REMARK 500 1 DT B 17 C5 DT B 17 C7 0.040 REMARK 500 2 DA A 2 N9 DA A 2 C4 -0.041 REMARK 500 2 DG A 4 C8 DG A 4 N9 -0.046 REMARK 500 2 DC A 5 N1 DC A 5 C6 -0.047 REMARK 500 2 DT A 6 C5 DT A 6 C7 0.039 REMARK 500 2 DT A 11 C5 DT A 11 C7 0.038 REMARK 500 2 DC A 12 C5' DC A 12 C4' 0.043 REMARK 500 2 DT B 17 C5 DT B 17 C7 0.043 REMARK 500 3 DA A 2 N9 DA A 2 C4 -0.040 REMARK 500 3 DG A 4 C8 DG A 4 N9 -0.050 REMARK 500 3 DC A 5 N1 DC A 5 C6 -0.044 REMARK 500 3 DT A 6 C5 DT A 6 C7 0.040 REMARK 500 3 DT A 11 C5 DT A 11 C7 0.042 REMARK 500 3 DT B 17 C5 DT B 17 C7 0.046 REMARK 500 3 DT B 20 C5 DT B 20 C7 0.038 REMARK 500 4 DA A 2 N9 DA A 2 C4 -0.045 REMARK 500 4 DC A 5 N1 DC A 5 C6 -0.046 REMARK 500 4 DT A 6 C5 DT A 6 C7 0.046 REMARK 500 4 DT A 11 C5 DT A 11 C7 0.043 REMARK 500 4 DT B 20 C5 DT B 20 C7 0.042 REMARK 500 5 DA A 2 N9 DA A 2 C4 -0.042 REMARK 500 5 DG A 4 C8 DG A 4 N9 -0.053 REMARK 500 5 DC A 5 N1 DC A 5 C6 -0.050 REMARK 500 5 DT A 6 C5' DT A 6 C4' 0.054 REMARK 500 5 DT A 6 C5 DT A 6 C7 0.040 REMARK 500 5 DT A 11 C5 DT A 11 C7 0.039 REMARK 500 5 DT B 20 C5 DT B 20 C7 0.039 REMARK 500 6 DG A 4 C8 DG A 4 N9 -0.046 REMARK 500 6 DC A 5 C5' DC A 5 C4' 0.050 REMARK 500 6 DT A 6 C5 DT A 6 C7 0.047 REMARK 500 6 DG B 19 P DG B 19 O5' 0.065 REMARK 500 6 DG B 19 C5' DG B 19 C4' 0.048 REMARK 500 6 DT B 20 C5 DT B 20 C7 0.039 REMARK 500 6 DG B 22 C2' DG B 22 C1' 0.062 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 1 DA A 2 O4' - C4' - C3' ANGL. DEV. = -4.0 DEGREES REMARK 500 1 DA A 2 C4' - C3' - O3' ANGL. DEV. = 17.3 DEGREES REMARK 500 1 DA A 2 C4' - C3' - C2' ANGL. DEV. = -4.7 DEGREES REMARK 500 1 DA A 2 O4' - C1' - C2' ANGL. DEV. = -4.8 DEGREES REMARK 500 1 DA A 2 O4' - C1' - N9 ANGL. DEV. = 12.3 DEGREES REMARK 500 1 DC A 3 O4' - C1' - C2' ANGL. DEV. = -6.2 DEGREES REMARK 500 1 DG A 4 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 1 DG A 4 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 DC A 5 C5 - C4 - N4 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 DT A 6 O4' - C1' - C2' ANGL. DEV. = -7.5 DEGREES REMARK 500 1 DC A 8 C4' - C3' - C2' ANGL. DEV. = -5.8 DEGREES REMARK 500 1 DC A 9 O4' - C1' - C2' ANGL. DEV. = -9.0 DEGREES REMARK 500 1 DA A 10 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 1 DA A 10 O4' - C1' - N9 ANGL. DEV. = -4.9 DEGREES REMARK 500 1 DT A 11 C1' - O4' - C4' ANGL. DEV. = -6.9 DEGREES REMARK 500 1 DC A 12 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 1 DC A 12 N1 - C2 - O2 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 DG B 15 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 1 DG B 15 O4' - C1' - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 1 DT B 17 O4' - C1' - C2' ANGL. DEV. = -4.9 DEGREES REMARK 500 1 DG B 18 C3' - C2' - C1' ANGL. DEV. = -7.1 DEGREES REMARK 500 1 DG B 18 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 1 DG B 19 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 DT B 20 O4' - C1' - N1 ANGL. DEV. = 4.0 DEGREES REMARK 500 1 DA B 21 O4' - C1' - N9 ANGL. DEV. = -4.4 DEGREES REMARK 500 1 DG B 22 N9 - C4 - C5 ANGL. DEV. = 2.6 DEGREES REMARK 500 2 DA A 1 C4' - C3' - C2' ANGL. DEV. = -5.8 DEGREES REMARK 500 2 DA A 2 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 2 DA A 2 C4' - C3' - O3' ANGL. DEV. = 14.1 DEGREES REMARK 500 2 DA A 2 O4' - C1' - N9 ANGL. DEV. = 7.3 DEGREES REMARK 500 2 DA A 2 N9 - C4 - C5 ANGL. DEV. = 2.5 DEGREES REMARK 500 2 DC A 3 O4' - C1' - C2' ANGL. DEV. = -5.6 DEGREES REMARK 500 2 DC A 3 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 2 DG A 4 C4' - C3' - C2' ANGL. DEV. = -5.0 DEGREES REMARK 500 2 DG A 4 N7 - C8 - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 2 DC A 5 C4' - C3' - C2' ANGL. DEV. = -4.5 DEGREES REMARK 500 2 DC A 5 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 2 DC A 5 C5 - C4 - N4 ANGL. DEV. = 5.5 DEGREES REMARK 500 2 DG A 4 C3' - O3' - P ANGL. DEV. = 9.6 DEGREES REMARK 500 2 DT A 6 O4' - C1' - N1 ANGL. DEV. = -5.1 DEGREES REMARK 500 2 DA A 7 O4' - C1' - C2' ANGL. DEV. = -6.6 DEGREES REMARK 500 2 DC A 8 C4' - C3' - C2' ANGL. DEV. = -5.3 DEGREES REMARK 500 2 DC A 9 O4' - C1' - C2' ANGL. DEV. = -7.7 DEGREES REMARK 500 2 DC A 9 N1 - C2 - O2 ANGL. DEV. = 3.8 DEGREES REMARK 500 2 DT A 11 C1' - O4' - C4' ANGL. DEV. = -8.1 DEGREES REMARK 500 2 DT A 11 C6 - C5 - C7 ANGL. DEV. = -5.0 DEGREES REMARK 500 2 DC A 12 C5' - C4' - C3' ANGL. DEV. = 7.8 DEGREES REMARK 500 2 DC A 12 C4' - C3' - C2' ANGL. DEV. = -5.5 DEGREES REMARK 500 2 DC A 12 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 2 DC A 13 O4' - C1' - N1 ANGL. DEV. = -4.5 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 191 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AF A 23
DBREF 1AX7 A 1 13 PDB 1AX7 1AX7 1 13 DBREF 1AX7 B 14 22 PDB 1AX7 1AX7 14 22
SEQRES 1 A 13 DA DA DC DG DC DT DA DC DC DA DT DC DC SEQRES 1 B 9 DG DG DA DT DG DG DT DA DG
HET AF A 23 24
HETNAM AF 2-AMINOFLUORENE
FORMUL 3 AF C13 H11 N
LINK N AF A 23 C8 DG A 4 1555 1555 1.45
SITE 1 AC1 4 DA A 2 DG A 4 DC A 5 DG B 22
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