HEADER DNA 11-NOV-11 3ULM TITLE X-RAY DIFFRACTION STUDIES OF RING CRYSTALS OBTAINED FOR D(CACGCG) TITLE 2 .D(CGCGTG): STAGE (II) HEXAGONAL PLATES WITH SPOTS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 6-MER DNA; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: CHEMICALLY SYNTHESIZED BY M/S MICROSYNTH KEYWDS Z-TYPE DNA DOUBLE HELIX, DNA EXPDTA X-RAY DIFFRACTION AUTHOR P.K.MANDAL,S.VENKADESH,N.GAUTHAM REVDAT 3 03-APR-24 3ULM 1 REMARK REVDAT 2 20-MAR-24 3ULM 1 REMARK REVDAT 1 25-JUL-12 3ULM 0 JRNL AUTH P.K.MANDAL,A.R.CHANDRASEKARAN,B.R.MADHANAGOPAL,S.VENKADESH, JRNL AUTH 2 N.GAUTHAM JRNL TITL RING CRYSTALS OF OLIGONUCLEOTIDES: GROWTH STAGES AND X-RAY JRNL TITL 2 DIFFRACTION STUDIES JRNL REF J.CRYST.GROWTH V. 354 20 2012 JRNL REFN ISSN 0022-0248 JRNL DOI 10.1016/J.JCRYSGRO.2012.05.029 REMARK 2 REMARK 2 RESOLUTION. 3.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 135 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.900 REMARK 3 FREE R VALUE TEST SET COUNT : 10 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.01 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.09 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3840 REMARK 3 BIN FREE R VALUE SET COUNT : 0 REMARK 3 BIN FREE R VALUE : 0.0000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 81 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 1 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 57.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06000 REMARK 3 B22 (A**2) : -0.06000 REMARK 3 B33 (A**2) : 0.09000 REMARK 3 B12 (A**2) : -0.03000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.563 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.296 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.392 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.835 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 89 ; 0.021 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 134 ; 3.939 ; 3.000 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 15 ; 0.181 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 44 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 89 ; 2.307 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 134 ; 3.726 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE DNA OLIGONUCLEOTIDE HAS SIX BASE REMARK 3 PAIRS (D(CACGCG).D(CGCGTG)) AND FORMS THE Z-TYPE DOUBLE HELICAL REMARK 3 STRUCTURE. THE STRUCTURE HAS STATISTICAL DIS-ORDER AND COMPRISES REMARK 3 OF A DINUCLEOTIDE STEP IN THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT. REMARK 3 THE DINUCLEOTIDE STEP COULD STAND FOR EITHER CPG/CPG OR CPA/TPG. REMARK 3 DUE TO DISORDER, THE DINUCLEOTIDE STEP WAS CONSTRUCTED AS TPG/ REMARK 3 TPG WHERE THE C5 METHYL GROUP OF THYMINE WAS ASSIGNED OCCUPANCY REMARK 3 OF 1/6 AND N2 OF GUANINE WAS ASSIGNED OCCUPANCY OF 5/6. REMARK 4 REMARK 4 3ULM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000068907. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : A DOUBLE-CRYSTAL SI(111) REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : THE OPTICS CONSIST IN A VERTICAL REMARK 200 COLLIMATING MIRROR, A DOUBLE- REMARK 200 CRYSTAL SI(111) MONOCHROMATOR REMARK 200 FOLLOWED BY A TOROIDAL BENDABLE REMARK 200 FOCUSSING MIRROR. REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOMAR REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 147 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : 0.09470 REMARK 200 FOR THE DATA SET : 3.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.01 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.67 REMARK 200 R MERGE FOR SHELL (I) : 0.40400 REMARK 200 R SYM FOR SHELL (I) : 0.35200 REMARK 200 FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: Z-TYPE DNA DINUCLEOTIDE STEP BUILT USING INSIGHTII REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1MM DNA, 75MM SODIUM CACODYLATE REMARK 280 TRIHYDRATE BUFFER (PH 7.0), 0.5MM COBALT HEXAMMINE CHLORIDE, REMARK 280 0.75MM SPERMINE, EQUILIBRATED AGAINST 50% METHYL PENTANE DIOL REMARK 280 (MPD) , VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 27.81933 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 13.90967 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 20.86450 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 6.95483 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 34.77417 REMARK 290 REMARK 290 REMARK: NULL 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 DT A 3 REMARK 465 DG A 4 REMARK 465 DT B 1 REMARK 465 DG B 2 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 DT B 3 P OP1 OP2 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 DG A 2 N9 DG A 2 C4 0.050 REMARK 500 DG B 4 O3' DG B 4 C3' 0.094 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 DT A 1 O5' - P - OP2 ANGL. DEV. = -9.2 DEGREES REMARK 500 DT A 1 O4' - C1' - N1 ANGL. DEV. = -5.8 DEGREES REMARK 500 DT A 1 C3' - O3' - P ANGL. DEV. = 13.8 DEGREES REMARK 500 DG A 2 O3' - P - O5' ANGL. DEV. = -13.1 DEGREES REMARK 500 DG A 2 O3' - P - OP1 ANGL. DEV. = 9.0 DEGREES REMARK 500 DG A 2 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG A 2 N3 - C4 - C5 ANGL. DEV. = -5.2 DEGREES REMARK 500 DG A 2 C4 - C5 - C6 ANGL. DEV. = 3.9 DEGREES REMARK 500 DG A 2 C8 - N9 - C4 ANGL. DEV. = -3.9 DEGREES REMARK 500 DG A 2 C4 - N9 - C1' ANGL. DEV. = 10.8 DEGREES REMARK 500 DT B 3 C3' - O3' - P ANGL. DEV. = 10.5 DEGREES REMARK 500 DG B 4 N3 - C4 - C5 ANGL. DEV. = -4.3 DEGREES REMARK 500 DG B 4 C4 - N9 - C1' ANGL. DEV. = 7.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ULN RELATED DB: PDB REMARK 900 STAGE (III) IN THE RING CRYSTAL FORMATION SEEN IN OLIGONUCLEOTIDE REMARK 900 RELATED ID: 3ULO RELATED DB: PDB REMARK 900 STAGE (IV) IN THE RING CRYSTAL FORMATION SEEN IN OLIGONUCLEOTIDE REMARK 900 RELATED ID: 3UM4 RELATED DB: PDB REMARK 900 STAGE (I) HEXAGONAL PLATES REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE ACTUAL DNA SEQUENCE FOR THE THIS STUDY IS D(CACGCG).(CGCGTG) DBREF 3ULM A 1 4 PDB 3ULM 3ULM 1 4 DBREF 3ULM B 1 4 PDB 3ULM 3ULM 1 4 SEQRES 1 A 4 DT DG DT DG SEQRES 1 B 4 DT DG DT DG FORMUL 3 HOH *(H2 O) CRYST1 17.489 17.489 41.729 90.00 90.00 120.00 P 65 12 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 0.057179 0.033012 0.000000 0.00000 SCALE2 0.000000 0.066024 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023964 0.00000 ATOM 1 P DT A 1 -6.992 -5.612 0.639 0.50 2.00 P ATOM 2 OP1 DT A 1 -7.154 -6.429 1.867 0.50 2.00 O ATOM 3 OP2 DT A 1 -7.987 -4.588 0.277 0.50 2.00 O ATOM 4 O5' DT A 1 -5.766 -4.645 0.731 1.00 2.00 O ATOM 5 C5' DT A 1 -6.030 -3.308 0.267 1.00 7.05 C ATOM 6 C4' DT A 1 -5.140 -2.235 0.893 1.00 13.66 C ATOM 7 O4' DT A 1 -3.956 -2.855 1.440 1.00 14.94 O ATOM 8 C3' DT A 1 -4.692 -1.038 0.029 1.00 16.07 C ATOM 9 O3' DT A 1 -5.412 0.141 0.461 1.00 18.02 O ATOM 10 C2' DT A 1 -3.173 -1.011 0.240 1.00 16.58 C ATOM 11 C1' DT A 1 -2.896 -1.963 1.403 1.00 16.36 C ATOM 12 N1 DT A 1 -1.768 -2.839 1.281 1.00 18.67 N ATOM 13 C2 DT A 1 -0.537 -2.343 1.066 1.00 22.90 C ATOM 14 O2 DT A 1 -0.321 -1.169 0.965 1.00 24.45 O ATOM 15 N3 DT A 1 0.480 -3.266 0.974 1.00 27.53 N ATOM 16 C4 DT A 1 0.413 -4.643 1.079 1.00 27.30 C ATOM 17 O4 DT A 1 1.418 -5.347 0.983 1.00 26.99 O ATOM 18 C5 DT A 1 -0.932 -5.126 1.332 1.00 26.71 C ATOM 19 C7 DT A 1 -1.211 -6.594 1.487 0.17 25.98 C ATOM 20 C6 DT A 1 -1.926 -4.200 1.428 1.00 24.40 C ATOM 21 P DG A 2 -5.336 1.726 0.046 1.00 26.65 P ATOM 22 OP1 DG A 2 -6.119 2.220 -1.147 1.00 23.95 O ATOM 23 OP2 DG A 2 -3.959 2.259 0.308 1.00 25.14 O ATOM 24 O5' DG A 2 -6.325 2.114 1.244 1.00 26.56 O ATOM 25 C5' DG A 2 -5.985 1.690 2.561 1.00 26.45 C ATOM 26 C4' DG A 2 -7.189 1.352 3.407 1.00 24.42 C ATOM 27 O4' DG A 2 -7.392 -0.083 3.493 1.00 22.88 O ATOM 28 C3' DG A 2 -6.846 1.833 4.779 1.00 24.85 C ATOM 29 O3' DG A 2 -7.426 3.189 4.972 1.00 23.82 O ATOM 30 C2' DG A 2 -7.273 0.668 5.688 1.00 24.22 C ATOM 31 C1' DG A 2 -7.530 -0.542 4.794 1.00 22.72 C ATOM 32 N9 DG A 2 -6.786 -1.816 4.981 1.00 26.95 N ATOM 33 C8 DG A 2 -7.465 -2.977 5.316 1.00 30.80 C ATOM 34 N7 DG A 2 -6.719 -4.067 5.447 1.00 32.27 N ATOM 35 C5 DG A 2 -5.426 -3.632 5.186 1.00 30.65 C ATOM 36 C6 DG A 2 -4.231 -4.412 5.182 1.00 30.91 C ATOM 37 O6 DG A 2 -4.105 -5.641 5.423 1.00 31.89 O ATOM 38 N1 DG A 2 -3.128 -3.624 4.867 1.00 29.16 N ATOM 39 C2 DG A 2 -3.213 -2.281 4.601 1.00 28.65 C ATOM 40 N2 DG A 2 -2.059 -1.662 4.319 0.83 28.91 N ATOM 41 N3 DG A 2 -4.329 -1.563 4.586 1.00 28.46 N ATOM 42 C4 DG A 2 -5.436 -2.263 4.893 1.00 28.59 C TER 43 DG A 2 ATOM 44 O5' DT B 3 6.139 -1.493 7.026 1.00 35.50 O ATOM 45 C5' DT B 3 6.437 -1.635 5.652 1.00 36.02 C ATOM 46 C4' DT B 3 5.269 -1.126 4.828 1.00 35.58 C ATOM 47 O4' DT B 3 4.647 -2.224 4.073 1.00 37.90 O ATOM 48 C3' DT B 3 4.188 -0.506 5.698 1.00 32.26 C ATOM 49 O3' DT B 3 4.285 0.924 5.832 1.00 27.00 O ATOM 50 C2' DT B 3 2.879 -0.954 5.044 1.00 34.67 C ATOM 51 C1' DT B 3 3.240 -2.024 3.990 1.00 37.35 C ATOM 52 N1 DT B 3 2.643 -3.317 4.294 1.00 37.93 N ATOM 53 C2 DT B 3 1.351 -3.377 4.746 1.00 38.19 C ATOM 54 O2 DT B 3 0.669 -2.385 4.860 1.00 39.44 O ATOM 55 N3 DT B 3 0.896 -4.628 5.076 1.00 37.34 N ATOM 56 C4 DT B 3 1.630 -5.797 4.990 1.00 38.09 C ATOM 57 O4 DT B 3 1.165 -6.878 5.298 1.00 38.50 O ATOM 58 C5 DT B 3 2.989 -5.671 4.510 1.00 39.88 C ATOM 59 C7 DT B 3 3.873 -6.881 4.363 0.17 39.35 C ATOM 60 C6 DT B 3 3.437 -4.440 4.201 1.00 39.83 C ATOM 61 P DG B 4 5.132 1.993 4.975 1.00 25.13 P ATOM 62 OP1 DG B 4 6.576 2.045 5.314 1.00 23.00 O ATOM 63 OP2 DG B 4 4.350 3.233 5.161 1.00 22.41 O ATOM 64 O5' DG B 4 5.099 1.447 3.466 1.00 23.55 O ATOM 65 C5' DG B 4 5.463 2.404 2.453 1.00 21.06 C ATOM 66 C4' DG B 4 6.843 2.213 1.860 1.00 17.05 C ATOM 67 O4' DG B 4 7.315 0.948 2.393 1.00 14.66 O ATOM 68 C3' DG B 4 6.823 2.090 0.328 1.00 17.62 C ATOM 69 O3' DG B 4 7.120 3.346 -0.492 1.00 16.49 O ATOM 70 C2' DG B 4 7.805 0.920 0.118 1.00 16.26 C ATOM 71 C1' DG B 4 7.738 0.084 1.379 1.00 14.09 C ATOM 72 N9 DG B 4 6.879 -1.099 1.387 1.00 16.42 N ATOM 73 C8 DG B 4 7.398 -2.354 1.579 1.00 18.34 C ATOM 74 N7 DG B 4 6.496 -3.312 1.588 1.00 19.21 N ATOM 75 C5 DG B 4 5.295 -2.674 1.385 1.00 18.27 C ATOM 76 C6 DG B 4 3.990 -3.246 1.295 1.00 20.07 C ATOM 77 O6 DG B 4 3.646 -4.444 1.385 1.00 20.47 O ATOM 78 N1 DG B 4 3.010 -2.284 1.082 1.00 17.97 N ATOM 79 C2 DG B 4 3.268 -0.945 0.968 1.00 17.60 C ATOM 80 N2 DG B 4 2.179 -0.184 0.753 0.83 13.71 N ATOM 81 N3 DG B 4 4.502 -0.404 1.078 1.00 18.70 N ATOM 82 C4 DG B 4 5.495 -1.310 1.274 1.00 17.39 C TER 83 DG B 4 HETATM 84 O HOH A 101 -4.482 -8.595 7.106 1.00 5.26 O MASTER 335 0 0 0 0 0 0 6 82 2 0 2 END