HEADER DNA 11-DEC-06 2O80 TITLE DUPLEX DNA CONTAINING AN ABASIC SITE WITH AN OPPOSITE DC (ALPHA TITLE 2 ANOMER) IN 5'-G_AC-3' (10 STRUCTURE ENSEMBLE AND AVERAGED STRUCTURE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*CP*AP*AP*AP*GP*(ORP)P*AP*CP*CP*GP*GP*G)-3'; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 5'-D(*CP*CP*CP*GP*GP*TP*CP*CP*TP*TP*TP*GP*G)-3'; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: CHEMICALLY SYNTHESIZED; SOURCE 4 MOL_ID: 2; SOURCE 5 SYNTHETIC: YES KEYWDS DNA DAMAGE, APE1, ABASIC, AMBER, MOLECULAR DYNAMICS, DNA EXPDTA SOLUTION NMR NUMMDL 11 MDLTYP MINIMIZED AVERAGE AUTHOR J.CHEN,F.Y.DUPRADEAU,D.A.CASE,C.J.TURNER,J.STUBBE REVDAT 5 29-NOV-23 2O80 1 REMARK REVDAT 4 16-MAR-22 2O80 1 REMARK LINK REVDAT 3 24-FEB-09 2O80 1 VERSN REVDAT 2 25-NOV-08 2O80 1 JRNL REVDAT 1 27-NOV-07 2O80 0 JRNL AUTH J.CHEN,F.Y.DUPRADEAU,D.A.CASE,C.J.TURNER,J.STUBBE JRNL TITL DNA OLIGONUCLEOTIDES WITH A, T, G OR C OPPOSITE AN ABASIC JRNL TITL 2 SITE: STRUCTURE AND DYNAMICS. JRNL REF NUCLEIC ACIDS RES. V. 36 253 2008 JRNL REFN ISSN 0305-1048 JRNL PMID 18025040 JRNL DOI 10.1093/NAR/GKM622 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 2001, AMBER 8.0 REMARK 3 AUTHORS : ACCELRYS INC. (FELIX), CASE ET AL. (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURES ARE BASED ON 478 NOE-DERIVED REMARK 3 DISTANCE CONSTRAINTS, 63 DIHEDRAL ANGLE RESTRAINTS. REMARK 4 REMARK 4 2O80 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000040802. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 277 REMARK 210 PH : 6.5; 6.5 REMARK 210 IONIC STRENGTH : 10 MM SODIUM PHOSPHATE, 0.2 MM REMARK 210 EDTA; 10 MM SODIUM PHOSPHATE, REMARK 210 0.2 MM EDTA REMARK 210 PRESSURE : 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 2.5 MM DUPLEX DNA; 2.5 MM DUPLEX REMARK 210 DNA REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 2D TOCSY; E-COSY; H-P REMARK 210 HSQC; H3'-SELECTIVE HSQC; REMARK 210 WATERGATE-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 591 MHZ REMARK 210 SPECTROMETER MODEL : CUSTOM-BUILT REMARK 210 SPECTROMETER MANUFACTURER : CUSTOM-BUILT REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : MARDIGRAS REMARK 210 METHOD USED : SIMULATED ANNEALING MOLECULAR REMARK 210 DYNAMICS MATRIX RELAXATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 30 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 11 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS,STRUCTURES REMARK 210 WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 11 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES AND H-P HETERONUCLEAR EXPERIMENTS 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 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 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 DC A 1 C5' DC A 1 C4' 0.050 REMARK 500 1 DC A 1 C2' DC A 1 C1' 0.104 REMARK 500 1 DC A 1 C4 DC A 1 N4 -0.081 REMARK 500 1 DA A 3 C5' DA A 3 C4' 0.045 REMARK 500 1 DA A 4 N3 DA A 4 C4 0.071 REMARK 500 1 DA A 4 C5 DA A 4 N7 0.050 REMARK 500 1 DA A 5 C5 DA A 5 N7 0.058 REMARK 500 1 DA A 5 C8 DA A 5 N9 -0.054 REMARK 500 1 DG A 6 C2 DG A 6 N2 -0.061 REMARK 500 1 DA A 8 C5' DA A 8 C4' 0.079 REMARK 500 1 DA A 8 N3 DA A 8 C4 0.039 REMARK 500 1 DA A 8 C5 DA A 8 N7 0.077 REMARK 500 1 DA A 8 C6 DA A 8 N6 -0.061 REMARK 500 1 DC A 9 C4 DC A 9 N4 -0.064 REMARK 500 1 DC A 10 C3' DC A 10 C2' 0.091 REMARK 500 1 DG A 12 P DG A 12 O5' 0.084 REMARK 500 1 DG A 12 C5' DG A 12 C4' 0.056 REMARK 500 1 DG A 12 N1 DG A 12 C2 0.052 REMARK 500 1 DG A 12 C2 DG A 12 N3 0.057 REMARK 500 1 DG A 13 N1 DG A 13 C2 0.081 REMARK 500 1 DG A 13 N3 DG A 13 C4 0.075 REMARK 500 1 DG A 13 N7 DG A 13 C8 -0.045 REMARK 500 1 DC B 15 C5' DC B 15 C4' 0.057 REMARK 500 1 DC B 15 C4 DC B 15 N4 -0.061 REMARK 500 1 DC B 15 C5 DC B 15 C6 0.048 REMARK 500 1 DC B 16 P DC B 16 O5' 0.074 REMARK 500 1 DC B 16 C4 DC B 16 N4 -0.068 REMARK 500 1 DC B 16 N1 DC B 16 C6 0.039 REMARK 500 1 DG B 17 C5' DG B 17 C4' 0.067 REMARK 500 1 DG B 17 O4' DG B 17 C4' -0.063 REMARK 500 1 DG B 17 C2 DG B 17 N3 -0.050 REMARK 500 1 DG B 17 C6 DG B 17 N1 0.043 REMARK 500 1 DG B 17 C5 DG B 17 N7 0.041 REMARK 500 1 DG B 18 C5 DG B 18 C6 0.062 REMARK 500 1 DG B 18 N7 DG B 18 C8 -0.038 REMARK 500 1 DG B 18 O3' DT B 19 P 0.086 REMARK 500 1 DC B 20 N1 DC B 20 C6 0.043 REMARK 500 1 DC B 20 N3 DC B 20 C4 -0.056 REMARK 500 1 DC B 21 C4 DC B 21 C5 0.050 REMARK 500 1 DT B 22 C3' DT B 22 C2' 0.087 REMARK 500 1 DT B 22 C6 DT B 22 N1 0.049 REMARK 500 1 DT B 23 C5' DT B 23 C4' 0.063 REMARK 500 1 DT B 23 N1 DT B 23 C2 0.056 REMARK 500 1 DT B 23 C2 DT B 23 N3 0.052 REMARK 500 1 DT B 24 P DT B 24 O5' 0.061 REMARK 500 1 DT B 24 C5' DT B 24 C4' 0.078 REMARK 500 1 DT B 24 O4' DT B 24 C4' -0.094 REMARK 500 1 DT B 24 C5 DT B 24 C6 0.042 REMARK 500 1 DT B 24 C5 DT B 24 C7 0.045 REMARK 500 1 DT B 24 O3' DG B 25 P 0.092 REMARK 500 REMARK 500 THIS ENTRY HAS 513 BOND DEVIATIONS. 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 DC A 1 C3' - C2' - C1' ANGL. DEV. = -6.2 DEGREES REMARK 500 1 DC A 1 C6 - N1 - C2 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 DC A 1 N3 - C2 - O2 ANGL. DEV. = -4.7 DEGREES REMARK 500 1 DC A 2 N1 - C2 - O2 ANGL. DEV. = 4.1 DEGREES REMARK 500 1 DC A 2 N3 - C2 - O2 ANGL. DEV. = -4.3 DEGREES REMARK 500 1 DA A 3 O4' - C1' - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 DA A 3 C2 - N3 - C4 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 DA A 3 C5 - N7 - C8 ANGL. DEV. = -3.3 DEGREES REMARK 500 1 DA A 3 N7 - C8 - N9 ANGL. DEV. = 4.3 DEGREES REMARK 500 1 DA A 3 C8 - N9 - C4 ANGL. DEV. = -3.0 DEGREES REMARK 500 1 DA A 4 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 1 DA A 4 N7 - C8 - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 1 DA A 5 O4' - C4' - C3' ANGL. DEV. = -2.7 DEGREES REMARK 500 1 DA A 5 C1' - O4' - C4' ANGL. DEV. = 5.8 DEGREES REMARK 500 1 DA A 5 C4 - C5 - N7 ANGL. DEV. = -8.2 DEGREES REMARK 500 1 DA A 5 C5 - N7 - C8 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 DA A 5 N9 - C4 - C5 ANGL. DEV. = 4.8 DEGREES REMARK 500 1 DA A 5 C6 - C5 - N7 ANGL. DEV. = 6.7 DEGREES REMARK 500 1 DG A 6 O4' - C1' - C2' ANGL. DEV. = -4.9 DEGREES REMARK 500 1 DG A 6 O4' - C1' - N9 ANGL. DEV. = 9.2 DEGREES REMARK 500 1 DG A 6 C4 - C5 - C6 ANGL. DEV. = -5.6 DEGREES REMARK 500 1 DG A 6 C5 - C6 - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 1 DG A 6 C6 - C5 - N7 ANGL. DEV. = 4.1 DEGREES REMARK 500 1 DG A 6 N1 - C6 - O6 ANGL. DEV. = -6.7 DEGREES REMARK 500 1 DG A 6 C3' - O3' - P ANGL. DEV. = 8.9 DEGREES REMARK 500 1 DA A 8 O4' - C4' - C3' ANGL. DEV. = 4.7 DEGREES REMARK 500 1 DA A 8 O4' - C1' - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 1 DA A 8 N1 - C2 - N3 ANGL. DEV. = -3.4 DEGREES REMARK 500 1 DA A 8 C2 - N3 - C4 ANGL. DEV. = 5.7 DEGREES REMARK 500 1 DA A 8 N3 - C4 - C5 ANGL. DEV. = -4.6 DEGREES REMARK 500 1 DA A 8 C5 - C6 - N1 ANGL. DEV. = 4.0 DEGREES REMARK 500 1 DC A 9 C6 - N1 - C2 ANGL. DEV. = -2.5 DEGREES REMARK 500 1 DC A 10 C3' - O3' - P ANGL. DEV. = 7.7 DEGREES REMARK 500 1 DG A 11 O4' - C1' - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 DG A 11 C8 - N9 - C4 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 DG A 11 N9 - C4 - C5 ANGL. DEV. = 2.8 DEGREES REMARK 500 1 DG A 11 N3 - C4 - N9 ANGL. DEV. = -3.8 DEGREES REMARK 500 1 DG A 11 N1 - C6 - O6 ANGL. DEV. = -3.8 DEGREES REMARK 500 1 DG A 12 C3' - C2' - C1' ANGL. DEV. = -6.0 DEGREES REMARK 500 1 DG A 12 O4' - C1' - C2' ANGL. DEV. = 3.3 DEGREES REMARK 500 1 DG A 12 C6 - N1 - C2 ANGL. DEV. = -4.2 DEGREES REMARK 500 1 DG A 12 C4 - C5 - N7 ANGL. DEV. = -4.3 DEGREES REMARK 500 1 DG A 12 C5 - N7 - C8 ANGL. DEV. = 4.7 DEGREES REMARK 500 1 DG A 12 N7 - C8 - N9 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 DG A 12 C5 - C6 - O6 ANGL. DEV. = -4.7 DEGREES REMARK 500 1 DG A 13 O4' - C4' - C3' ANGL. DEV. = 6.2 DEGREES REMARK 500 1 DG A 13 C1' - O4' - C4' ANGL. DEV. = -7.0 DEGREES REMARK 500 1 DG A 13 C5 - C6 - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 DG A 13 C5 - C6 - O6 ANGL. DEV. = -6.1 DEGREES REMARK 500 1 DC B 14 O4' - C4' - C3' ANGL. DEV. = 3.9 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 1379 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 DG A 6 0.08 SIDE CHAIN REMARK 500 1 DC A 10 0.08 SIDE CHAIN REMARK 500 1 DG A 12 0.10 SIDE CHAIN REMARK 500 1 DG A 13 0.13 SIDE CHAIN REMARK 500 1 DC B 15 0.10 SIDE CHAIN REMARK 500 1 DC B 16 0.07 SIDE CHAIN REMARK 500 1 DG B 17 0.08 SIDE CHAIN REMARK 500 1 DG B 18 0.09 SIDE CHAIN REMARK 500 1 DT B 19 0.09 SIDE CHAIN REMARK 500 1 DC B 20 0.09 SIDE CHAIN REMARK 500 1 DT B 24 0.07 SIDE CHAIN REMARK 500 1 DG B 25 0.08 SIDE CHAIN REMARK 500 1 DG B 26 0.14 SIDE CHAIN REMARK 500 2 DA A 3 0.11 SIDE CHAIN REMARK 500 2 DC A 10 0.10 SIDE CHAIN REMARK 500 2 DG A 11 0.08 SIDE CHAIN REMARK 500 2 DG A 12 0.10 SIDE CHAIN REMARK 500 2 DG A 13 0.12 SIDE CHAIN REMARK 500 2 DC B 14 0.06 SIDE CHAIN REMARK 500 2 DC B 15 0.07 SIDE CHAIN REMARK 500 2 DC B 20 0.16 SIDE CHAIN REMARK 500 2 DC B 21 0.09 SIDE CHAIN REMARK 500 2 DT B 22 0.15 SIDE CHAIN REMARK 500 2 DT B 24 0.06 SIDE CHAIN REMARK 500 2 DG B 26 0.12 SIDE CHAIN REMARK 500 3 DC A 2 0.12 SIDE CHAIN REMARK 500 3 DA A 4 0.09 SIDE CHAIN REMARK 500 3 DG A 13 0.12 SIDE CHAIN REMARK 500 3 DC B 15 0.10 SIDE CHAIN REMARK 500 3 DG B 17 0.08 SIDE CHAIN REMARK 500 3 DG B 18 0.07 SIDE CHAIN REMARK 500 3 DC B 21 0.08 SIDE CHAIN REMARK 500 3 DT B 23 0.07 SIDE CHAIN REMARK 500 3 DT B 24 0.10 SIDE CHAIN REMARK 500 3 DG B 25 0.07 SIDE CHAIN REMARK 500 3 DG B 26 0.12 SIDE CHAIN REMARK 500 4 DA A 4 0.07 SIDE CHAIN REMARK 500 4 DA A 5 0.08 SIDE CHAIN REMARK 500 4 DA A 8 0.08 SIDE CHAIN REMARK 500 4 DG A 11 0.08 SIDE CHAIN REMARK 500 4 DG A 13 0.10 SIDE CHAIN REMARK 500 4 DC B 14 0.14 SIDE CHAIN REMARK 500 4 DG B 17 0.07 SIDE CHAIN REMARK 500 4 DC B 20 0.10 SIDE CHAIN REMARK 500 4 DT B 22 0.15 SIDE CHAIN REMARK 500 4 DT B 23 0.08 SIDE CHAIN REMARK 500 4 DT B 24 0.07 SIDE CHAIN REMARK 500 4 DG B 25 0.06 SIDE CHAIN REMARK 500 4 DG B 26 0.08 SIDE CHAIN REMARK 500 5 DC A 1 0.12 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 125 PLANE 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 ORP A 7 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HSL RELATED DB: PDB REMARK 900 ABASIC SITE WITH AN OPPOSING DA IN THE SAME SEQUENCE CONTEXT REMARK 900 RELATED ID: 2HSR RELATED DB: PDB REMARK 900 ABASIC SITE WITH AN OPPOSING DA IN THE SAME SEQUENCE CONTEXT REMARK 900 RELATED ID: 2O7W RELATED DB: PDB REMARK 900 ABASIC SITE WITH AN OPPOSING DG IN THE SAME SEQUENCE CONTEXT REMARK 900 RELATED ID: 2O7X RELATED DB: PDB REMARK 900 ABASIC SITE WITH AN OPPOSING DG IN THE SAME SEQUENCE CONTEXT REMARK 900 RELATED ID: 2O7Y RELATED DB: PDB REMARK 900 ABASIC SITE WITH AN OPPOSING T IN THE SAME SEQUENCE CONTEXT REMARK 900 RELATED ID: 2O7Z RELATED DB: PDB REMARK 900 ABASIC SITE WITH AN OPPOSING T IN THE SAME SEQUENCE CONTEXT REMARK 900 RELATED ID: 2O82 RELATED DB: PDB DBREF 2O80 A 1 13 PDB 2O80 2O80 1 13 DBREF 2O80 B 14 26 PDB 2O80 2O80 14 26 SEQRES 1 A 13 DC DC DA DA DA DG ORP DA DC DC DG DG DG SEQRES 1 B 13 DC DC DC DG DG DT DC DC DT DT DT DG DG HET ORP A 7 20 HETNAM ORP 2-DEOXY-5-PHOSPHONO-RIBOSE FORMUL 1 ORP C5 H11 O7 P LINK O3' DG A 6 P ORP A 7 1555 1555 1.60 LINK O3 ORP A 7 P DA A 8 1555 1555 1.57 SITE 1 AC1 3 DG A 6 DA A 8 DT B 23 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 MODEL 1 HETATM 188 C1 ORP A 7 0.201 2.860 13.140 1.00 0.00 C HETATM 189 O1 ORP A 7 0.190 4.164 13.672 1.00 0.00 O HETATM 190 C2 ORP A 7 0.527 2.941 11.648 1.00 0.00 C HETATM 191 C3 ORP A 7 0.243 1.466 11.289 1.00 0.00 C HETATM 192 O3 ORP A 7 -0.043 1.343 9.854 1.00 0.00 O HETATM 193 C4 ORP A 7 -0.933 1.059 12.201 1.00 0.00 C HETATM 194 O4 ORP A 7 -1.065 2.169 13.181 1.00 0.00 O HETATM 195 C5 ORP A 7 -0.654 -0.225 12.971 1.00 0.00 C HETATM 196 O5 ORP A 7 -1.736 -0.546 13.759 1.00 0.00 O HETATM 197 P ORP A 7 -1.798 -1.796 14.794 1.00 0.00 P HETATM 198 O1P ORP A 7 -3.220 -1.879 15.314 1.00 0.00 O HETATM 199 O2P ORP A 7 -1.174 -2.971 14.081 1.00 0.00 O HETATM 200 H1 ORP A 7 1.027 2.259 13.560 1.00 0.00 H HETATM 201 HO1 ORP A 7 -0.596 4.669 13.324 1.00 0.00 H HETATM 202 H21 ORP A 7 -0.390 3.577 11.193 1.00 0.00 H HETATM 203 H22 ORP A 7 1.667 3.268 11.349 1.00 0.00 H HETATM 204 H3 ORP A 7 1.120 0.837 11.550 1.00 0.00 H HETATM 205 H4 ORP A 7 -1.788 1.040 11.610 1.00 0.00 H HETATM 206 H51 ORP A 7 -0.405 -1.063 12.263 1.00 0.00 H HETATM 207 H52 ORP A 7 0.290 -0.075 13.546 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL MODEL 2 HETATM 188 C1 ORP A 7 1.243 3.063 13.833 1.00 0.00 C HETATM 189 O1 ORP A 7 1.277 4.463 14.022 1.00 0.00 O HETATM 190 C2 ORP A 7 2.077 2.728 12.583 1.00 0.00 C HETATM 191 C3 ORP A 7 1.419 1.503 12.007 1.00 0.00 C HETATM 192 O3 ORP A 7 1.537 1.584 10.519 1.00 0.00 O HETATM 193 C4 ORP A 7 -0.055 1.582 12.573 1.00 0.00 C HETATM 194 O4 ORP A 7 -0.048 2.745 13.428 1.00 0.00 O HETATM 195 C5 ORP A 7 -0.299 0.313 13.461 1.00 0.00 C HETATM 196 O5 ORP A 7 -1.646 0.241 13.956 1.00 0.00 O HETATM 197 P ORP A 7 -2.107 -0.872 15.004 1.00 0.00 P HETATM 198 O1P ORP A 7 -3.429 -0.405 15.420 1.00 0.00 O HETATM 199 O2P ORP A 7 -1.965 -2.228 14.404 1.00 0.00 O HETATM 200 H1 ORP A 7 1.618 2.602 14.728 1.00 0.00 H HETATM 201 HO1 ORP A 7 0.590 4.769 14.628 1.00 0.00 H HETATM 202 H21 ORP A 7 3.144 2.464 12.835 1.00 0.00 H HETATM 203 H22 ORP A 7 1.848 3.563 11.837 1.00 0.00 H HETATM 204 H3 ORP A 7 1.797 0.482 12.390 1.00 0.00 H HETATM 205 H4 ORP A 7 -0.823 1.665 11.829 1.00 0.00 H HETATM 206 H51 ORP A 7 -0.115 -0.479 12.860 1.00 0.00 H HETATM 207 H52 ORP A 7 0.354 0.408 14.348 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL MODEL 3 HETATM 188 C1 ORP A 7 0.271 2.969 13.353 1.00 0.00 C HETATM 189 O1 ORP A 7 0.075 4.241 14.019 1.00 0.00 O HETATM 190 C2 ORP A 7 0.787 3.093 11.929 1.00 0.00 C HETATM 191 C3 ORP A 7 0.517 1.609 11.521 1.00 0.00 C HETATM 192 O3 ORP A 7 0.402 1.540 10.123 1.00 0.00 O HETATM 193 C4 ORP A 7 -0.750 1.191 12.288 1.00 0.00 C HETATM 194 O4 ORP A 7 -0.943 2.307 13.156 1.00 0.00 O HETATM 195 C5 ORP A 7 -0.559 -0.159 13.027 1.00 0.00 C HETATM 196 O5 ORP A 7 -1.780 -0.475 13.644 1.00 0.00 O HETATM 197 P ORP A 7 -1.863 -1.749 14.662 1.00 0.00 P HETATM 198 O1P ORP A 7 -3.205 -1.810 15.269 1.00 0.00 O HETATM 199 O2P ORP A 7 -1.363 -2.930 13.906 1.00 0.00 O HETATM 200 H1 ORP A 7 1.030 2.432 14.003 1.00 0.00 H HETATM 201 HO1 ORP A 7 -0.724 4.576 13.615 1.00 0.00 H HETATM 202 H21 ORP A 7 0.101 3.653 11.175 1.00 0.00 H HETATM 203 H22 ORP A 7 1.968 3.426 12.070 1.00 0.00 H HETATM 204 H3 ORP A 7 1.401 1.038 11.838 1.00 0.00 H HETATM 205 H4 ORP A 7 -1.527 1.011 11.620 1.00 0.00 H HETATM 206 H51 ORP A 7 -0.287 -1.028 12.474 1.00 0.00 H HETATM 207 H52 ORP A 7 0.236 -0.126 13.788 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL MODEL 4 HETATM 188 C1 ORP A 7 0.666 3.044 13.479 1.00 0.00 C HETATM 189 O1 ORP A 7 0.555 4.336 13.921 1.00 0.00 O HETATM 190 C2 ORP A 7 1.394 3.017 12.190 1.00 0.00 C HETATM 191 C3 ORP A 7 0.947 1.649 11.662 1.00 0.00 C HETATM 192 O3 ORP A 7 0.954 1.674 10.272 1.00 0.00 O HETATM 193 C4 ORP A 7 -0.393 1.429 12.357 1.00 0.00 C HETATM 194 O4 ORP A 7 -0.591 2.539 13.213 1.00 0.00 O HETATM 195 C5 ORP A 7 -0.347 0.100 13.171 1.00 0.00 C HETATM 196 O5 ORP A 7 -1.620 -0.277 13.768 1.00 0.00 O HETATM 197 P ORP A 7 -1.829 -1.572 14.642 1.00 0.00 P HETATM 198 O1P ORP A 7 -3.182 -1.490 15.253 1.00 0.00 O HETATM 199 O2P ORP A 7 -1.391 -2.735 13.912 1.00 0.00 O HETATM 200 H1 ORP A 7 1.183 2.378 14.235 1.00 0.00 H HETATM 201 HO1 ORP A 7 -0.074 4.872 13.391 1.00 0.00 H HETATM 202 H21 ORP A 7 0.874 3.805 11.462 1.00 0.00 H HETATM 203 H22 ORP A 7 2.599 3.026 12.223 1.00 0.00 H HETATM 204 H3 ORP A 7 1.647 0.809 12.038 1.00 0.00 H HETATM 205 H4 ORP A 7 -1.301 1.469 11.722 1.00 0.00 H HETATM 206 H51 ORP A 7 -0.154 -0.616 12.462 1.00 0.00 H HETATM 207 H52 ORP A 7 0.402 0.143 13.935 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL MODEL 5 HETATM 188 C1 ORP A 7 1.544 2.999 13.595 1.00 0.00 C HETATM 189 O1 ORP A 7 1.795 4.284 14.191 1.00 0.00 O HETATM 190 C2 ORP A 7 1.861 3.096 12.093 1.00 0.00 C HETATM 191 C3 ORP A 7 1.283 1.742 11.672 1.00 0.00 C HETATM 192 O3 ORP A 7 1.186 1.770 10.235 1.00 0.00 O HETATM 193 C4 ORP A 7 -0.017 1.699 12.531 1.00 0.00 C HETATM 194 O4 ORP A 7 0.146 2.608 13.566 1.00 0.00 O HETATM 195 C5 ORP A 7 -0.105 0.299 13.162 1.00 0.00 C HETATM 196 O5 ORP A 7 -1.445 0.097 13.738 1.00 0.00 O HETATM 197 P ORP A 7 -1.832 -1.126 14.701 1.00 0.00 P HETATM 198 O1P ORP A 7 -3.166 -0.946 15.241 1.00 0.00 O HETATM 199 O2P ORP A 7 -1.655 -2.334 13.840 1.00 0.00 O HETATM 200 H1 ORP A 7 2.070 2.202 14.156 1.00 0.00 H HETATM 201 HO1 ORP A 7 1.010 4.330 14.782 1.00 0.00 H HETATM 202 H21 ORP A 7 1.246 3.986 11.660 1.00 0.00 H HETATM 203 H22 ORP A 7 3.016 2.896 12.020 1.00 0.00 H HETATM 204 H3 ORP A 7 1.937 0.840 11.933 1.00 0.00 H HETATM 205 H4 ORP A 7 -0.940 1.902 11.876 1.00 0.00 H HETATM 206 H51 ORP A 7 0.141 -0.367 12.337 1.00 0.00 H HETATM 207 H52 ORP A 7 0.764 0.184 13.801 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL MODEL 6 HETATM 188 C1 ORP A 7 1.909 3.191 13.869 1.00 0.00 C HETATM 189 O1 ORP A 7 2.020 4.398 14.492 1.00 0.00 O HETATM 190 C2 ORP A 7 2.393 3.092 12.417 1.00 0.00 C HETATM 191 C3 ORP A 7 1.732 1.819 11.873 1.00 0.00 C HETATM 192 O3 ORP A 7 1.558 1.954 10.474 1.00 0.00 O HETATM 193 C4 ORP A 7 0.359 1.836 12.643 1.00 0.00 C HETATM 194 O4 ORP A 7 0.546 2.850 13.710 1.00 0.00 O HETATM 195 C5 ORP A 7 -0.003 0.452 13.157 1.00 0.00 C HETATM 196 O5 ORP A 7 -1.355 0.452 13.697 1.00 0.00 O HETATM 197 P ORP A 7 -1.980 -0.815 14.516 1.00 0.00 P HETATM 198 O1P ORP A 7 -3.270 -0.361 15.098 1.00 0.00 O HETATM 199 O2P ORP A 7 -1.904 -2.016 13.702 1.00 0.00 O HETATM 200 H1 ORP A 7 2.344 2.461 14.571 1.00 0.00 H HETATM 201 HO1 ORP A 7 1.884 4.374 15.436 1.00 0.00 H HETATM 202 H21 ORP A 7 1.852 4.015 11.974 1.00 0.00 H HETATM 203 H22 ORP A 7 3.558 3.007 12.371 1.00 0.00 H HETATM 204 H3 ORP A 7 2.246 0.840 12.155 1.00 0.00 H HETATM 205 H4 ORP A 7 -0.452 2.262 11.996 1.00 0.00 H HETATM 206 H51 ORP A 7 0.676 0.196 13.988 1.00 0.00 H HETATM 207 H52 ORP A 7 0.183 -0.405 12.389 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL MODEL 7 HETATM 188 C1 ORP A 7 1.586 3.259 13.894 1.00 0.00 C HETATM 189 O1 ORP A 7 1.574 4.550 14.415 1.00 0.00 O HETATM 190 C2 ORP A 7 2.334 3.276 12.587 1.00 0.00 C HETATM 191 C3 ORP A 7 1.781 1.903 12.058 1.00 0.00 C HETATM 192 O3 ORP A 7 1.924 2.053 10.657 1.00 0.00 O HETATM 193 C4 ORP A 7 0.374 1.869 12.588 1.00 0.00 C HETATM 194 O4 ORP A 7 0.210 2.984 13.414 1.00 0.00 O HETATM 195 C5 ORP A 7 0.090 0.624 13.469 1.00 0.00 C HETATM 196 O5 ORP A 7 -1.292 0.492 13.837 1.00 0.00 O HETATM 197 P ORP A 7 -1.844 -0.828 14.508 1.00 0.00 P HETATM 198 O1P ORP A 7 -3.234 -0.535 15.027 1.00 0.00 O HETATM 199 O2P ORP A 7 -1.648 -1.986 13.582 1.00 0.00 O HETATM 200 H1 ORP A 7 1.885 2.560 14.631 1.00 0.00 H HETATM 201 HO1 ORP A 7 0.770 4.516 14.987 1.00 0.00 H HETATM 202 H21 ORP A 7 1.837 4.026 11.894 1.00 0.00 H HETATM 203 H22 ORP A 7 3.468 3.315 12.835 1.00 0.00 H HETATM 204 H3 ORP A 7 2.485 1.153 12.411 1.00 0.00 H HETATM 205 H4 ORP A 7 -0.357 1.782 11.734 1.00 0.00 H HETATM 206 H51 ORP A 7 0.314 -0.348 12.997 1.00 0.00 H HETATM 207 H52 ORP A 7 0.740 0.500 14.411 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL MODEL 8 HETATM 188 C1 ORP A 7 1.422 3.191 14.092 1.00 0.00 C HETATM 189 O1 ORP A 7 1.500 4.394 14.757 1.00 0.00 O HETATM 190 C2 ORP A 7 2.201 3.196 12.863 1.00 0.00 C HETATM 191 C3 ORP A 7 1.773 1.892 12.129 1.00 0.00 C HETATM 192 O3 ORP A 7 1.980 2.134 10.730 1.00 0.00 O HETATM 193 C4 ORP A 7 0.428 1.757 12.698 1.00 0.00 C HETATM 194 O4 ORP A 7 0.134 2.821 13.626 1.00 0.00 O HETATM 195 C5 ORP A 7 0.116 0.443 13.473 1.00 0.00 C HETATM 196 O5 ORP A 7 -1.250 0.336 13.850 1.00 0.00 O HETATM 197 P ORP A 7 -1.830 -0.944 14.629 1.00 0.00 P HETATM 198 O1P ORP A 7 -3.230 -0.636 15.036 1.00 0.00 O HETATM 199 O2P ORP A 7 -1.545 -2.146 13.755 1.00 0.00 O HETATM 200 H1 ORP A 7 1.726 2.377 14.771 1.00 0.00 H HETATM 201 HO1 ORP A 7 0.777 4.491 15.416 1.00 0.00 H HETATM 202 H21 ORP A 7 1.791 4.075 12.211 1.00 0.00 H HETATM 203 H22 ORP A 7 3.317 3.149 13.279 1.00 0.00 H HETATM 204 H3 ORP A 7 2.404 1.111 12.410 1.00 0.00 H HETATM 205 H4 ORP A 7 -0.291 1.823 11.868 1.00 0.00 H HETATM 206 H51 ORP A 7 0.259 -0.369 12.826 1.00 0.00 H HETATM 207 H52 ORP A 7 0.722 0.421 14.418 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL MODEL 9 HETATM 188 C1 ORP A 7 1.945 2.722 14.284 1.00 0.00 C HETATM 189 O1 ORP A 7 2.163 3.874 15.091 1.00 0.00 O HETATM 190 C2 ORP A 7 2.713 2.715 12.935 1.00 0.00 C HETATM 191 C3 ORP A 7 1.975 1.625 12.187 1.00 0.00 C HETATM 192 O3 ORP A 7 1.821 1.870 10.747 1.00 0.00 O HETATM 193 C4 ORP A 7 0.595 1.668 12.837 1.00 0.00 C HETATM 194 O4 ORP A 7 0.586 2.625 13.877 1.00 0.00 O HETATM 195 C5 ORP A 7 0.124 0.292 13.356 1.00 0.00 C HETATM 196 O5 ORP A 7 -1.272 0.307 13.711 1.00 0.00 O HETATM 197 P ORP A 7 -1.955 -0.893 14.559 1.00 0.00 P HETATM 198 O1P ORP A 7 -3.334 -0.550 14.911 1.00 0.00 O HETATM 199 O2P ORP A 7 -1.835 -2.145 13.839 1.00 0.00 O HETATM 200 H1 ORP A 7 2.222 1.898 14.947 1.00 0.00 H HETATM 201 HO1 ORP A 7 1.706 3.918 15.928 1.00 0.00 H HETATM 202 H21 ORP A 7 2.399 3.712 12.466 1.00 0.00 H HETATM 203 H22 ORP A 7 3.896 2.470 13.090 1.00 0.00 H HETATM 204 H3 ORP A 7 2.435 0.622 12.369 1.00 0.00 H HETATM 205 H4 ORP A 7 -0.139 2.036 12.150 1.00 0.00 H HETATM 206 H51 ORP A 7 0.808 -0.067 14.137 1.00 0.00 H HETATM 207 H52 ORP A 7 0.290 -0.428 12.439 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL MODEL 10 HETATM 188 C1 ORP A 7 1.940 2.503 13.896 1.00 0.00 C HETATM 189 O1 ORP A 7 2.158 3.711 14.624 1.00 0.00 O HETATM 190 C2 ORP A 7 2.583 2.606 12.582 1.00 0.00 C HETATM 191 C3 ORP A 7 1.866 1.441 11.938 1.00 0.00 C HETATM 192 O3 ORP A 7 1.752 1.682 10.595 1.00 0.00 O HETATM 193 C4 ORP A 7 0.387 1.516 12.638 1.00 0.00 C HETATM 194 O4 ORP A 7 0.608 2.485 13.650 1.00 0.00 O HETATM 195 C5 ORP A 7 -0.031 0.239 13.229 1.00 0.00 C HETATM 196 O5 ORP A 7 -1.316 0.417 13.824 1.00 0.00 O HETATM 197 P ORP A 7 -1.935 -0.795 14.781 1.00 0.00 P HETATM 198 O1P ORP A 7 -3.303 -0.382 15.110 1.00 0.00 O HETATM 199 O2P ORP A 7 -1.696 -2.144 14.169 1.00 0.00 O HETATM 200 H1 ORP A 7 2.318 1.739 14.539 1.00 0.00 H HETATM 201 HO1 ORP A 7 1.604 3.502 15.422 1.00 0.00 H HETATM 202 H21 ORP A 7 2.280 3.633 12.098 1.00 0.00 H HETATM 203 H22 ORP A 7 3.711 2.253 12.670 1.00 0.00 H HETATM 204 H3 ORP A 7 2.330 0.456 12.112 1.00 0.00 H HETATM 205 H4 ORP A 7 -0.367 1.907 11.922 1.00 0.00 H HETATM 206 H51 ORP A 7 0.065 -0.662 12.578 1.00 0.00 H HETATM 207 H52 ORP A 7 0.724 -0.017 13.966 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL MODEL 11 HETATM 188 C1 ORP A 7 0.774 3.311 12.987 1.00 0.00 C HETATM 189 O1 ORP A 7 1.005 4.680 12.938 1.00 0.00 O HETATM 190 C2 ORP A 7 1.711 2.646 12.006 1.00 0.00 C HETATM 191 C3 ORP A 7 0.938 1.417 11.550 1.00 0.00 C HETATM 192 O3 ORP A 7 1.081 1.320 10.144 1.00 0.00 O HETATM 193 C4 ORP A 7 -0.505 1.691 12.009 1.00 0.00 C HETATM 194 O4 ORP A 7 -0.524 2.990 12.578 1.00 0.00 O HETATM 195 C5 ORP A 7 -0.956 0.641 13.026 1.00 0.00 C HETATM 196 O5 ORP A 7 -2.302 0.853 13.426 1.00 0.00 O HETATM 197 P ORP A 7 -3.010 -0.130 14.475 1.00 0.00 P HETATM 198 O1P ORP A 7 -4.328 0.410 14.846 1.00 0.00 O HETATM 199 O2P ORP A 7 -2.942 -1.508 13.969 1.00 0.00 O HETATM 200 H1 ORP A 7 0.976 2.929 13.984 1.00 0.00 H HETATM 201 HO1 ORP A 7 1.945 4.754 12.802 1.00 0.00 H HETATM 202 H21 ORP A 7 2.645 2.385 12.496 1.00 0.00 H HETATM 203 H22 ORP A 7 1.885 3.309 11.160 1.00 0.00 H HETATM 204 H3 ORP A 7 1.337 0.527 12.040 1.00 0.00 H HETATM 205 H4 ORP A 7 -1.178 1.660 11.154 1.00 0.00 H HETATM 206 H51 ORP A 7 -0.878 -0.342 12.559 1.00 0.00 H HETATM 207 H52 ORP A 7 -0.300 0.677 13.896 1.00 0.00 H TER 400 DG A 13 TER 810 DG B 26 ENDMDL CONECT 163 197 CONECT 188 189 190 194 200 CONECT 189 188 201 CONECT 190 188 191 202 203 CONECT 191 190 192 193 204 CONECT 192 191 208 CONECT 193 191 194 195 205 CONECT 194 188 193 CONECT 195 193 196 206 207 CONECT 196 195 197 CONECT 197 163 196 198 199 CONECT 198 197 CONECT 199 197 CONECT 200 188 CONECT 201 189 CONECT 202 190 CONECT 203 190 CONECT 204 191 CONECT 205 193 CONECT 206 195 CONECT 207 195 CONECT 208 192 MASTER 301 0 1 0 0 0 1 6 517 2 22 2 END