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