1SM5 - Header Asymmetric Unit

HEADER DNA 08-MAR-04 1SM5

TITLE CRYSTAL STRUCTURE OF A DNA DECAMER CONTAINING A THYMINE- TITLE 2 DIMER

COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*GP*CP*(BRU)P*TP*AP*AP*TP*(BRU)P*CP*G)-3'; COMPND 3 CHAIN: A, C; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 5'-D(*CP*GP*AP*AP*TP*TP*AP*AP*GP*C)-3'; COMPND 7 CHAIN: B, D; COMPND 8 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES

KEYWDS UV-DAMAGED DNA, THYMINE DIMER, DNA DECAMER

EXPDTA X-RAY DIFFRACTION

AUTHOR H.PARK,K.ZHANG,Y.REN,S.NADJI,N.SINHA,J.-S.TAYLOR,C.KANG

REVDAT 2 24-FEB-09 1SM5 1 VERSN REVDAT 1 25-MAY-04 1SM5 0

SPRSDE 25-MAY-04 1SM5 1MV7

JRNL AUTH H.PARK,K.ZHANG,Y.REN,S.NADJI,N.SINHA,J.-S.TAYLOR, JRNL AUTH 2 C.KANG JRNL TITL CRYSTAL STRUCTURE OF A DNA DECAMER CONTAINING A JRNL TITL 2 THYMINE-DIMER JRNL REF PROC.NATL.ACAD.SCI.USA V. 99 15965 2002 JRNL REFN ISSN 0027-8424 JRNL PMID 12456887 JRNL DOI 10.1073/PNAS.242422699

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 6447 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 372 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 808 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 52 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 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.023 REMARK 3 BOND ANGLES (DEGREES) : 1.35 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1SM5 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAR-04. REMARK 100 THE RCSB ID CODE IS RCSB021821.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9205, 0.8434, 0.9207 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7865 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MGCL2, HEPES-NA, PEG 400, PH 7.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K

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 12.25000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 37.66500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.92500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 37.66500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 12.25000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 26.92500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL

REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 C6 DT B 5 C5 DT B 6 1.91 REMARK 500 C6 DT D 5 C5 DT D 6 1.92 REMARK 500 C5 DT D 5 C6 DT D 6 2.15 REMARK 500 C5 DT B 5 C6 DT B 6 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 DT A 4 O4' DT A 4 C4' -0.069 REMARK 500 DG A 10 O3' DG A 10 C3' -0.046 REMARK 500 DG A 10 N7 DG A 10 C8 -0.041 REMARK 500 DC B 1 C4' DC B 1 C3' -0.072 REMARK 500 DC B 1 N1 DC B 1 C2 -0.086 REMARK 500 DC B 1 C2 DC B 1 N3 -0.053 REMARK 500 DG B 2 O4' DG B 2 C4' -0.061 REMARK 500 DG B 2 N1 DG B 2 C2 -0.055 REMARK 500 DG B 2 N3 DG B 2 C4 -0.043 REMARK 500 DG B 2 C4 DG B 2 C5 -0.045 REMARK 500 DG B 2 C6 DG B 2 N1 -0.046 REMARK 500 DA B 3 C5' DA B 3 C4' -0.083 REMARK 500 DA B 3 C4 DA B 3 C5 -0.045 REMARK 500 DA B 3 C6 DA B 3 N1 -0.065 REMARK 500 DA B 3 N9 DA B 3 C4 0.045 REMARK 500 DT B 5 C5 DT B 5 C6 0.056 REMARK 500 DT B 5 C6 DT B 5 N1 0.043 REMARK 500 DT B 5 C5 DT B 5 C7 0.276 REMARK 500 DT B 6 C6 DT B 6 N1 0.073 REMARK 500 DT B 6 C5 DT B 6 C7 0.101 REMARK 500 DA B 8 C2' DA B 8 C1' -0.072 REMARK 500 DA B 8 C4 DA B 8 C5 -0.043 REMARK 500 DA B 8 C6 DA B 8 N1 -0.054 REMARK 500 DG C 1 O3' DG C 1 C3' -0.036 REMARK 500 DG C 10 C4' DG C 10 C3' -0.090 REMARK 500 DG D 2 C4' DG D 2 C3' -0.070 REMARK 500 DG D 2 C2' DG D 2 C1' -0.075 REMARK 500 DT D 5 C5 DT D 5 C6 0.059 REMARK 500 DT D 5 C6 DT D 5 N1 0.043 REMARK 500 DT D 5 C5 DT D 5 C7 0.274 REMARK 500 DT D 6 C4 DT D 6 C5 0.063 REMARK 500 DT D 6 C6 DT D 6 N1 0.065 REMARK 500 DT D 6 C5 DT D 6 C7 0.101 REMARK 500 DA D 8 C3' DA D 8 C2' -0.052 REMARK 500 DG D 9 C8 DG D 9 N9 -0.062 REMARK 500 DC D 10 N1 DC D 10 C6 -0.057 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 1 O4' - C1' - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 DG A 1 N7 - C8 - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 DG A 1 C8 - N9 - C4 ANGL. DEV. = -3.9 DEGREES REMARK 500 DG A 1 N9 - C4 - C5 ANGL. DEV. = 2.7 DEGREES REMARK 500 DC A 2 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DT A 4 O4' - C1' - C2' ANGL. DEV. = -5.3 DEGREES REMARK 500 DT A 4 C4 - C5 - C7 ANGL. DEV. = 4.7 DEGREES REMARK 500 DT A 4 C6 - C5 - C7 ANGL. DEV. = -7.4 DEGREES REMARK 500 DT A 7 C1' - O4' - C4' ANGL. DEV. = -7.3 DEGREES REMARK 500 DT A 7 O4' - C1' - N1 ANGL. DEV. = -5.7 DEGREES REMARK 500 DT A 7 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 DC A 9 N1 - C2 - O2 ANGL. DEV. = 4.7 DEGREES REMARK 500 DG A 10 O4' - C4' - C3' ANGL. DEV. = 3.7 DEGREES REMARK 500 DG A 10 C2 - N3 - C4 ANGL. DEV. = 4.2 DEGREES REMARK 500 DC A 9 C3' - O3' - P ANGL. DEV. = 13.0 DEGREES REMARK 500 DG A 10 O3' - P - OP2 ANGL. DEV. = 7.5 DEGREES REMARK 500 DC B 1 O4' - C1' - C2' ANGL. DEV. = -5.6 DEGREES REMARK 500 DC B 1 O4' - C1' - N1 ANGL. DEV. = -4.8 DEGREES REMARK 500 DC B 1 N1 - C2 - O2 ANGL. DEV. = 4.4 DEGREES REMARK 500 DC B 1 N3 - C2 - O2 ANGL. DEV. = -6.7 DEGREES REMARK 500 DG B 2 O4' - C1' - C2' ANGL. DEV. = -5.5 DEGREES REMARK 500 DG B 2 C2 - N3 - C4 ANGL. DEV. = 3.4 DEGREES REMARK 500 DG B 2 N3 - C2 - N2 ANGL. DEV. = 4.5 DEGREES REMARK 500 DA B 3 O4' - C1' - N9 ANGL. DEV. = 7.0 DEGREES REMARK 500 DA B 3 C5 - N7 - C8 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA B 3 N7 - C8 - N9 ANGL. DEV. = -3.6 DEGREES REMARK 500 DT B 5 O4' - C1' - N1 ANGL. DEV. = -9.5 DEGREES REMARK 500 DT B 5 C5 - C6 - N1 ANGL. DEV. = -5.3 DEGREES REMARK 500 DT B 5 C4 - C5 - C7 ANGL. DEV. = -25.4 DEGREES REMARK 500 DT B 6 C1' - O4' - C4' ANGL. DEV. = -10.5 DEGREES REMARK 500 DT B 6 O4' - C1' - N1 ANGL. DEV. = 13.0 DEGREES REMARK 500 DT B 6 N3 - C2 - O2 ANGL. DEV. = -3.9 DEGREES REMARK 500 DT B 6 N3 - C4 - O4 ANGL. DEV. = -5.0 DEGREES REMARK 500 DT B 6 C5 - C4 - O4 ANGL. DEV. = 4.4 DEGREES REMARK 500 DT B 6 C4 - C5 - C7 ANGL. DEV. = -11.3 DEGREES REMARK 500 DA B 8 O4' - C4' - C3' ANGL. DEV. = -3.6 DEGREES REMARK 500 DA B 8 C1' - O4' - C4' ANGL. DEV. = -9.6 DEGREES REMARK 500 DG B 9 O4' - C4' - C3' ANGL. DEV. = -2.6 DEGREES REMARK 500 DG B 9 O4' - C1' - C2' ANGL. DEV. = -8.1 DEGREES REMARK 500 DG B 9 C3' - O3' - P ANGL. DEV. = 11.9 DEGREES REMARK 500 DG C 1 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG C 1 C5 - C6 - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DC C 2 C1' - O4' - C4' ANGL. DEV. = -6.2 DEGREES REMARK 500 DC C 2 C4' - C3' - C2' ANGL. DEV. = -7.3 DEGREES REMARK 500 DG C 1 C3' - O3' - P ANGL. DEV. = 12.1 DEGREES REMARK 500 DT C 4 C1' - O4' - C4' ANGL. DEV. = -7.6 DEGREES REMARK 500 DT C 7 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG C 10 C4' - C3' - C2' ANGL. DEV. = -4.4 DEGREES REMARK 500 DG C 10 N3 - C4 - C5 ANGL. DEV. = -3.1 DEGREES REMARK 500 DG C 10 C4 - C5 - N7 ANGL. DEV. = -3.0 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 70 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 DC C 2 0.10 SIDE_CHAIN REMARK 500 DG C 10 0.06 SIDE_CHAIN REMARK 500 DG D 2 0.10 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL

REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 220 DISTANCE = 11.36 ANGSTROMS REMARK 525 HOH D 219 DISTANCE = 5.06 ANGSTROMS REMARK 525 HOH A 229 DISTANCE = 12.79 ANGSTROMS REMARK 525 HOH B 228 DISTANCE = 8.73 ANGSTROMS REMARK 525 HOH C 218 DISTANCE = 7.55 ANGSTROMS REMARK 525 HOH D 246 DISTANCE = 10.53 ANGSTROMS REMARK 525 HOH A 245 DISTANCE = 6.73 ANGSTROMS

DBREF 1SM5 A 1 10 PDB 1SM5 1SM5 1 10 DBREF 1SM5 B 1 10 PDB 1SM5 1SM5 1 10 DBREF 1SM5 C 1 10 PDB 1SM5 1SM5 1 10 DBREF 1SM5 D 1 10 PDB 1SM5 1SM5 1 10

SEQRES 1 A 10 DG DC BRU DT DA DA DT BRU DC DG SEQRES 1 B 10 DC DG DA DA DT DT DA DA DG DC SEQRES 1 C 10 DG DC BRU DT DA DA DT BRU DC DG SEQRES 1 D 10 DC DG DA DA DT DT DA DA DG DC

MODRES 1SM5 BRU A 3 DU MODRES 1SM5 BRU A 8 DU MODRES 1SM5 BRU C 3 DU MODRES 1SM5 BRU C 8 DU

HET BRU A 3 20 HET BRU A 8 20 HET BRU C 3 20 HET BRU C 8 20

HETNAM BRU 5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE

FORMUL 1 BRU 4(C9 H12 BR N2 O8 P) FORMUL 5 HOH *52(H2 O)

LINK C5 DT B 5 C5 DT B 6 1555 1555 1.55 LINK C5 DT D 5 C5 DT D 6 1555 1555 1.55 LINK C6 DT B 5 C6 DT B 6 1555 1555 1.58 LINK C6 DT D 5 C6 DT D 6 1555 1555 1.59 LINK O3' DC A 2 P BRU A 3 1555 1555 1.58 LINK O3' BRU A 3 P DT A 4 1555 1555 1.59 LINK O3' DT A 7 P BRU A 8 1555 1555 1.61 LINK O3' BRU A 8 P DC A 9 1555 1555 1.59 LINK O3' DC C 2 P BRU C 3 1555 1555 1.60 LINK O3' BRU C 3 P DT C 4 1555 1555 1.63 LINK O3' DT C 7 P BRU C 8 1555 1555 1.63 LINK O3' BRU C 8 P DC C 9 1555 1555 1.57

CRYST1 24.500 53.850 75.330 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 0.040816 0.000000 0.000000 0.00000

SCALE2 0.000000 0.018570 0.000000 0.00000

SCALE3 0.000000 0.000000 0.013275 0.00000