HEADER DNA 07-MAY-91 1D41 TITLE STABILIZATION OF Z-DNA BY DEMETHYLATION OF THYMINE BASES: 1.3 TITLE 2 ANGSTROMS SINGLE-CRYSTAL STRUCTURE OF D(M5CGUAM5CG) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*(5CM)P*GP*UP*AP*(5CM)P*G)-3'); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES KEYWDS Z-DNA, DOUBLE HELIX, MODIFIED, DNA EXPDTA X-RAY DIFFRACTION AUTHOR G.ZHOU,P.S.HO REVDAT 5 03-APR-24 1D41 1 REMARK REVDAT 4 07-FEB-24 1D41 1 REMARK LINK REVDAT 3 24-FEB-09 1D41 1 VERSN REVDAT 2 01-APR-03 1D41 1 JRNL REVDAT 1 15-APR-92 1D41 0 JRNL AUTH G.W.ZHOU,P.S.HO JRNL TITL STABILIZATION OF Z-DNA BY DEMETHYLATION OF THYMINE BASES: JRNL TITL 2 1.3-A SINGLE-CRYSTAL STRUCTURE OF D(M5CGUAM5CG). JRNL REF BIOCHEMISTRY V. 29 7229 1990 JRNL REFN ISSN 0006-2960 JRNL PMID 2207101 JRNL DOI 10.1021/BI00483A010 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NUCLSQ REMARK 3 AUTHORS : WESTHOF,DUMAS,MORAS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 2870 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.208 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 242 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 60 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 SUGAR-BASE BOND DISTANCE (A) : NULL ; NULL REMARK 3 SUGAR-BASE BOND ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 PHOSPHATE BONDS DISTANCE (A) : NULL ; NULL REMARK 3 PHOSPHATE BOND ANGLE, H-BOND (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION CONTACT (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION CONTACT (A) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 SUGAR-BASE BONDS (A**2) : NULL ; NULL REMARK 3 SUGAR-BASE ANGLES (A**2) : NULL ; NULL REMARK 3 PHOSPHATE BONDS (A**2) : NULL ; NULL REMARK 3 PHOSPHATE BOND ANGLE, H-BOND (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1D41 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY NDB. REMARK 100 THE DEPOSITION ID IS D_1000172646. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 2870 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: ZDFB06 IN WHICH THE METHYL GROUPS OF THE THYMINE REMARK 200 BASES WERE REMOVED FROM THE C5 POSITIONS. REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 25.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.00, VAPOR DIFFUSION REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 -1.000000 0.000000 0.000000 8.91000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 22.26000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 15.22000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 22.26000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 8.91000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 15.22000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 19 O HOH A 39 1.69 REMARK 500 O3' DG A 2 O HOH A 20 1.92 REMARK 500 C5' 5CM B 7 O HOH B 30 2.16 REMARK 500 REMARK 500 REMARK: NULL 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 C4' DG A 2 C3' 0.107 REMARK 500 DG A 2 C3' DG A 2 C2' -0.062 REMARK 500 DG A 2 C2' DG A 2 C1' 0.127 REMARK 500 DG A 2 O4' DG A 2 C1' 0.082 REMARK 500 DG A 2 C1' DG A 2 N9 -0.142 REMARK 500 DG A 2 N1 DG A 2 C2 -0.066 REMARK 500 DG A 2 C2 DG A 2 N3 -0.048 REMARK 500 DG A 2 N7 DG A 2 C8 0.051 REMARK 500 DG A 2 C2 DG A 2 N2 -0.090 REMARK 500 DG A 2 O3' DU A 3 P 0.089 REMARK 500 DU A 3 C2' DU A 3 C1' 0.144 REMARK 500 DA A 4 O4' DA A 4 C1' 0.136 REMARK 500 DA A 4 C4 DA A 4 C5 -0.065 REMARK 500 DA A 4 N7 DA A 4 C8 0.043 REMARK 500 DA A 4 C8 DA A 4 N9 -0.071 REMARK 500 DA A 4 C6 DA A 4 N6 0.077 REMARK 500 DG A 6 P DG A 6 O5' 0.083 REMARK 500 DG A 6 C5' DG A 6 C4' 0.082 REMARK 500 DG A 6 C4' DG A 6 C3' -0.108 REMARK 500 DG A 6 C3' DG A 6 C2' -0.077 REMARK 500 DG A 6 N1 DG A 6 C2 -0.072 REMARK 500 DG A 6 C2 DG A 6 N3 0.053 REMARK 500 DG A 6 C4 DG A 6 C5 -0.063 REMARK 500 DG A 6 C5 DG A 6 N7 0.056 REMARK 500 DG A 6 C8 DG A 6 N9 -0.068 REMARK 500 5CM B 7 O3' DG B 8 P -0.084 REMARK 500 DG B 8 C4' DG B 8 C3' 0.134 REMARK 500 DG B 8 C3' DG B 8 C2' -0.069 REMARK 500 DG B 8 C2' DG B 8 C1' -0.109 REMARK 500 DG B 8 O4' DG B 8 C1' 0.083 REMARK 500 DG B 8 N7 DG B 8 C8 0.080 REMARK 500 DG B 8 C8 DG B 8 N9 -0.045 REMARK 500 DG B 8 N9 DG B 8 C4 0.081 REMARK 500 DG B 8 C2 DG B 8 N2 -0.076 REMARK 500 DU B 9 C5' DU B 9 C4' 0.048 REMARK 500 DU B 9 C2' DU B 9 C1' 0.086 REMARK 500 DU B 9 O3' DU B 9 C3' -0.061 REMARK 500 DU B 9 C1' DU B 9 N1 0.119 REMARK 500 DU B 9 N1 DU B 9 C2 -0.063 REMARK 500 DA B 10 P DA B 10 OP2 -0.113 REMARK 500 DA B 10 P DA B 10 O5' 0.088 REMARK 500 DA B 10 C5' DA B 10 C4' -0.080 REMARK 500 DA B 10 C1' DA B 10 N9 -0.089 REMARK 500 DA B 10 C2 DA B 10 N3 0.058 REMARK 500 DA B 10 C6 DA B 10 N6 0.049 REMARK 500 DG B 12 P DG B 12 O5' 0.082 REMARK 500 DG B 12 C3' DG B 12 C2' -0.050 REMARK 500 DG B 12 O4' DG B 12 C4' -0.102 REMARK 500 DG B 12 O3' DG B 12 C3' -0.099 REMARK 500 DG B 12 N1 DG B 12 C2 -0.064 REMARK 500 REMARK 500 THIS ENTRY HAS 52 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 DG A 2 OP1 - P - OP2 ANGL. DEV. = 17.3 DEGREES REMARK 500 DG A 2 O5' - P - OP1 ANGL. DEV. = -15.2 DEGREES REMARK 500 DG A 2 O5' - P - OP2 ANGL. DEV. = 8.6 DEGREES REMARK 500 DG A 2 C4' - C3' - C2' ANGL. DEV. = 6.1 DEGREES REMARK 500 DG A 2 N1 - C2 - N3 ANGL. DEV. = 6.8 DEGREES REMARK 500 DG A 2 C4 - C5 - N7 ANGL. DEV. = 3.9 DEGREES REMARK 500 DG A 2 C5 - N7 - C8 ANGL. DEV. = -3.8 DEGREES REMARK 500 DG A 2 N3 - C2 - N2 ANGL. DEV. = -8.1 DEGREES REMARK 500 DG A 2 C5 - C6 - O6 ANGL. DEV. = -4.6 DEGREES REMARK 500 DU A 3 O3' - P - OP1 ANGL. DEV. = -13.7 DEGREES REMARK 500 DU A 3 O5' - C5' - C4' ANGL. DEV. = -17.5 DEGREES REMARK 500 DU A 3 O4' - C4' - C3' ANGL. DEV. = -2.8 DEGREES REMARK 500 DU A 3 C4' - C3' - C2' ANGL. DEV. = 7.2 DEGREES REMARK 500 DU A 3 C3' - C2' - C1' ANGL. DEV. = -10.6 DEGREES REMARK 500 DU A 3 O4' - C1' - N1 ANGL. DEV. = -5.5 DEGREES REMARK 500 DA A 4 O5' - C5' - C4' ANGL. DEV. = -6.5 DEGREES REMARK 500 DA A 4 C4' - C3' - O3' ANGL. DEV. = -15.5 DEGREES REMARK 500 DA A 4 C3' - C2' - C1' ANGL. DEV. = 7.4 DEGREES REMARK 500 DA A 4 O4' - C1' - C2' ANGL. DEV. = -5.1 DEGREES REMARK 500 DA A 4 C5 - N7 - C8 ANGL. DEV. = -3.4 DEGREES REMARK 500 DG A 6 O5' - P - OP1 ANGL. DEV. = -7.6 DEGREES REMARK 500 DG A 6 O5' - P - OP2 ANGL. DEV. = 8.6 DEGREES REMARK 500 DG A 6 O5' - C5' - C4' ANGL. DEV. = -13.2 DEGREES REMARK 500 DG A 6 P - O5' - C5' ANGL. DEV. = -12.9 DEGREES REMARK 500 DG A 6 O4' - C4' - C3' ANGL. DEV. = 9.3 DEGREES REMARK 500 DG A 6 C4' - C3' - C2' ANGL. DEV. = -4.5 DEGREES REMARK 500 DG A 6 C3' - C2' - C1' ANGL. DEV. = 8.5 DEGREES REMARK 500 DG A 6 C6 - N1 - C2 ANGL. DEV. = -9.1 DEGREES REMARK 500 DG A 6 N1 - C2 - N3 ANGL. DEV. = 7.0 DEGREES REMARK 500 DG A 6 C2 - N3 - C4 ANGL. DEV. = -5.1 DEGREES REMARK 500 DG A 6 C5 - C6 - N1 ANGL. DEV. = 5.0 DEGREES REMARK 500 DG A 6 C8 - N9 - C4 ANGL. DEV. = 3.4 DEGREES REMARK 500 DG A 6 N3 - C2 - N2 ANGL. DEV. = -8.8 DEGREES REMARK 500 DG A 6 N1 - C6 - O6 ANGL. DEV. = -4.9 DEGREES REMARK 500 DG B 8 O5' - C5' - C4' ANGL. DEV. = -10.6 DEGREES REMARK 500 DG B 8 C5' - C4' - C3' ANGL. DEV. = -12.9 DEGREES REMARK 500 DG B 8 C5' - C4' - O4' ANGL. DEV. = 7.3 DEGREES REMARK 500 DG B 8 O4' - C1' - C2' ANGL. DEV. = 7.6 DEGREES REMARK 500 DG B 8 C6 - N1 - C2 ANGL. DEV. = -7.2 DEGREES REMARK 500 DG B 8 N1 - C2 - N3 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG B 8 C5 - C6 - N1 ANGL. DEV. = 6.2 DEGREES REMARK 500 DG B 8 C4 - C5 - N7 ANGL. DEV. = 4.2 DEGREES REMARK 500 DG B 8 N9 - C4 - C5 ANGL. DEV. = -3.7 DEGREES REMARK 500 DG B 8 N3 - C4 - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 DG B 8 N3 - C2 - N2 ANGL. DEV. = -8.1 DEGREES REMARK 500 DG B 8 C5 - C6 - O6 ANGL. DEV. = -5.2 DEGREES REMARK 500 DG B 8 C3' - O3' - P ANGL. DEV. = 10.0 DEGREES REMARK 500 DU B 9 OP1 - P - OP2 ANGL. DEV. = -14.4 DEGREES REMARK 500 DU B 9 O5' - P - OP1 ANGL. DEV. = 7.3 DEGREES REMARK 500 DU B 9 O5' - C5' - C4' ANGL. DEV. = -5.0 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 84 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 14 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 69 O REMARK 620 2 HOH A 71 O 94.3 REMARK 620 3 HOH A 72 O 85.9 177.3 REMARK 620 4 HOH A 73 O 85.9 82.6 94.7 REMARK 620 5 HOH A 74 O 92.3 83.9 98.8 166.2 REMARK 620 6 HOH B 70 O 175.0 89.5 90.2 91.3 91.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 13 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DU B 9 OP2 REMARK 620 2 HOH B 64 O 91.5 REMARK 620 3 HOH B 65 O 89.0 172.7 REMARK 620 4 HOH B 66 O 91.3 89.9 82.9 REMARK 620 5 HOH B 67 O 96.8 105.1 82.0 162.6 REMARK 620 6 HOH B 68 O 172.0 96.0 83.2 86.0 83.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 13 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 14 DBREF 1D41 A 1 6 PDB 1D41 1D41 1 6 DBREF 1D41 B 7 12 PDB 1D41 1D41 7 12 SEQRES 1 A 6 5CM DG DU DA 5CM DG SEQRES 1 B 6 5CM DG DU DA 5CM DG MODRES 1D41 5CM A 1 DC MODRES 1D41 5CM A 5 DC MODRES 1D41 5CM B 7 DC MODRES 1D41 5CM B 11 DC HET 5CM A 1 17 HET 5CM A 5 20 HET 5CM B 7 17 HET 5CM B 11 20 HET MG B 13 1 HET MG B 14 1 HETNAM 5CM 5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 1 5CM 4(C10 H16 N3 O7 P) FORMUL 3 MG 2(MG 2+) FORMUL 5 HOH *60(H2 O) LINK O3' 5CM A 1 P DG A 2 1555 1555 1.64 LINK O3' DA A 4 P 5CM A 5 1555 1555 1.62 LINK O3' 5CM A 5 P DG A 6 1555 1555 1.62 LINK O3' 5CM B 7 P DG B 8 1555 1555 1.52 LINK O3' DA B 10 P 5CM B 11 1555 1555 1.63 LINK O3' 5CM B 11 P DG B 12 1555 1555 1.60 LINK O HOH A 69 MG MG B 14 1555 1555 2.12 LINK O HOH A 71 MG MG B 14 1555 1555 2.08 LINK O HOH A 72 MG MG B 14 1555 1555 2.05 LINK O HOH A 73 MG MG B 14 1555 1555 2.19 LINK O HOH A 74 MG MG B 14 1555 1555 2.08 LINK OP2 DU B 9 MG MG B 13 1555 1555 1.97 LINK MG MG B 13 O HOH B 64 1555 1555 2.05 LINK MG MG B 13 O HOH B 65 1555 1555 2.09 LINK MG MG B 13 O HOH B 66 1555 1555 2.24 LINK MG MG B 13 O HOH B 67 1555 1555 2.02 LINK MG MG B 13 O HOH B 68 1555 1555 2.18 LINK MG MG B 14 O HOH B 70 1555 1555 2.17 SITE 1 AC1 6 DU B 9 HOH B 64 HOH B 65 HOH B 66 SITE 2 AC1 6 HOH B 67 HOH B 68 SITE 1 AC2 6 HOH A 69 HOH A 71 HOH A 72 HOH A 73 SITE 2 AC2 6 HOH A 74 HOH B 70 CRYST1 17.820 30.440 44.520 90.00 90.00 90.00 P 21 21 21 8 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 0.056117 0.000000 0.000000 0.00000 SCALE2 0.000000 0.032852 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022462 0.00000 HETATM 1 N1 5CM A 1 15.300 17.856 18.978 1.00 5.29 N HETATM 2 C2 5CM A 1 13.936 17.644 18.769 1.00 5.46 C HETATM 3 N3 5CM A 1 13.198 18.750 18.673 1.00 6.23 N HETATM 4 C4 5CM A 1 13.771 20.037 18.734 1.00 5.07 C HETATM 5 C5 5CM A 1 15.159 20.247 19.018 1.00 5.64 C HETATM 6 C5A 5CM A 1 15.684 21.633 19.149 1.00 5.20 C HETATM 7 C6 5CM A 1 15.819 19.097 19.141 1.00 6.05 C HETATM 8 O2 5CM A 1 13.363 16.538 18.636 1.00 5.70 O HETATM 9 N4 5CM A 1 12.922 21.133 18.620 1.00 6.31 N HETATM 10 C1' 5CM A 1 16.101 16.621 19.183 1.00 6.78 C HETATM 11 C2' 5CM A 1 16.529 16.137 17.779 1.00 7.98 C HETATM 12 C3' 5CM A 1 17.754 15.266 18.331 1.00 9.97 C HETATM 13 C4' 5CM A 1 18.390 15.972 19.485 1.00 8.88 C HETATM 14 O4' 5CM A 1 17.194 16.845 19.942 1.00 8.12 O HETATM 15 O3' 5CM A 1 17.274 14.012 18.713 1.00 12.29 O HETATM 16 C5' 5CM A 1 19.585 16.850 19.270 1.00 9.20 C HETATM 17 O5' 5CM A 1 19.304 17.969 18.403 1.00 8.45 O