HEADER DNA 02-SEP-14 4R8J TITLE D(TCGGCGCCGA) WITH LAMBDA-[RU(TAP)2(DPPZ)]2+ SOAKED IN D2O COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*(THM)P*CP*GP*GP*CP*GP*CP*CP*GP*A)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 OTHER_DETAILS: DNA WAS SYNTHESISED BY ATDBIO IN SOUTHAMPTON, UK KEYWDS DNA KINKING, INFRA-RED, RUTHENIUM, DNA EXPDTA X-RAY DIFFRACTION AUTHOR J.P.HALL,S.P.GURUNG,G.W.WINTER,C.J.CARDIN REVDAT 4 28-FEB-24 4R8J 1 REMARK LINK REVDAT 3 22-NOV-17 4R8J 1 REMARK REVDAT 2 02-DEC-15 4R8J 1 JRNL REVDAT 1 28-OCT-15 4R8J 0 JRNL AUTH J.P.HALL,F.E.POYNTON,P.M.KEANE,S.P.GURUNG,J.A.BRAZIER, JRNL AUTH 2 D.J.CARDIN,G.WINTER,T.GUNNLAUGSSON,I.V.SAZANOVICH,M.TOWRIE, JRNL AUTH 3 C.J.CARDIN,J.M.KELLY,S.J.QUINN JRNL TITL MONITORING ONE-ELECTRON PHOTO-OXIDATION OF GUANINE IN DNA JRNL TITL 2 CRYSTALS USING ULTRAFAST INFRARED SPECTROSCOPY. JRNL REF NAT CHEM V. 7 961 2015 JRNL REFN ESSN 1755-4349 JRNL PMID 26587711 JRNL DOI 10.1038/NCHEM.2369 REMARK 2 REMARK 2 RESOLUTION. 1.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 1.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.66 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 10864 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) : 0.110 REMARK 3 R VALUE (WORKING SET) : 0.109 REMARK 3 FREE R VALUE : 0.125 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 568 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) : 1.21 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.24 REMARK 3 REFLECTION IN BIN (WORKING SET) : 765 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE SET COUNT : 49 REMARK 3 BIN FREE R VALUE : 0.2160 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 202 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 73 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.41000 REMARK 3 B22 (A**2) : -0.41000 REMARK 3 B33 (A**2) : 0.82000 REMARK 3 B12 (A**2) : 0.00000 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): 0.027 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.027 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.021 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.042 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.987 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.984 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 290 ; 0.016 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 134 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 456 ; 2.592 ; 1.598 REMARK 3 BOND ANGLES OTHERS (DEGREES): 308 ; 3.753 ; 3.000 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): 30 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 176 ; 0.032 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 78 ; 0.005 ; 0.020 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): 290 ; 2.514 ; 2.002 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 291 ; 2.510 ; 8.549 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 457 ; 3.408 ;34.236 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 685 ; 3.383 ;22.245 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 649 ; 3.065 ;21.665 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 290 ; 5.669 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 14 ;28.452 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 315 ;14.099 ; 5.000 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4R8J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-SEP-14. REMARK 100 THE DEPOSITION ID IS D_1000087033. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8266 REMARK 200 MONOCHROMATOR : DUAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11471 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.210 REMARK 200 RESOLUTION RANGE LOW (A) : 18.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXCD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE DROPS CONTAINED 1 L OF 2MM REMARK 280 OLIGONUCLOTIDE, 1 L OF 4MM RAC [RU(TAP)2(DPPZ)]CL2 AND 6 L OF REMARK 280 THE FOLLOWING SOLUTION; 10% (VOL/VOL) MPD, 40 MM SODIUM REMARK 280 CACODYLATE (PH 6.0), 12MM SPERMINE TETRA-HCL, 80MM SODIUM REMARK 280 CHLORIDE AND 20 MM BARIUM CHLORIDE. THE DROP WAS EQUILIBRATED REMARK 280 AGAINST 1ML OF 35% (VOL/VOL) 2-METHYL-2,4-PENTANEDIOL (MPD) IN REMARK 280 H2O , VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 19.71000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 21.18500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 21.18500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 29.56500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 21.18500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 21.18500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 9.85500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 21.18500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 21.18500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 29.56500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 21.18500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 21.18500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 9.85500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 19.71000 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 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 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 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 4 O5' - P - OP2 ANGL. DEV. = -6.4 DEGREES 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 A 5 0.07 SIDE CHAIN 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 BA A 101 BA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 4 O6 REMARK 620 2 DOD A 201 O 126.6 REMARK 620 3 DOD A 202 O 136.9 68.8 REMARK 620 4 DOD A 203 O 69.6 139.2 75.9 REMARK 620 5 DOD A 204 O 63.0 135.1 139.3 85.4 REMARK 620 6 DOD A 205 O 111.8 65.2 111.0 150.7 70.9 REMARK 620 7 DOD A 206 O 119.7 112.6 72.1 73.7 68.0 81.3 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BA A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RKL A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 103 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3QRN RELATED DB: PDB REMARK 900 STRUCTURE OF THE SAME SYSTEM IN H2O DBREF 4R8J A 1 10 PDB 4R8J 4R8J 1 10 SEQRES 1 A 10 THM DC DG DG DC DG DC DC DG DA HET THM A 1 30 HET BA A 101 1 HET RKL A 102 73 HET CL A 103 1 HETNAM THM THYMIDINE HETNAM BA BARIUM ION HETNAM RKL RU(TAP)2(DPPZ) COMPLEX HETNAM CL CHLORIDE ION HETSYN THM DEOXYTHYMIDINE; 2'-DEOXYTHYMIDINE FORMUL 1 THM C10 H14 N2 O5 FORMUL 2 BA BA 2+ FORMUL 3 RKL C38 H22 N12 RU 2+ FORMUL 4 CL CL 1- FORMUL 5 DOD *73(D2 O) LINK O3' THM A 1 P DC A 2 1555 1555 1.61 LINK O6 DG A 4 BA BA A 101 1555 1555 2.90 LINK BA BA A 101 O DOD A 201 1555 1555 2.82 LINK BA BA A 101 O DOD A 202 1555 1555 2.81 LINK BA BA A 101 O DOD A 203 1555 1555 2.74 LINK BA BA A 101 O DOD A 204 1555 1555 2.85 LINK BA BA A 101 O DOD A 205 1555 1555 2.87 LINK BA BA A 101 O DOD A 206 1555 1555 2.81 SITE 1 AC1 8 DG A 3 DG A 4 DOD A 201 DOD A 202 SITE 2 AC1 8 DOD A 203 DOD A 204 DOD A 205 DOD A 206 SITE 1 AC2 12 THM A 1 DC A 2 DG A 3 DG A 4 SITE 2 AC2 12 DC A 5 DC A 7 DC A 8 DG A 9 SITE 3 AC2 12 DA A 10 CL A 103 DOD A 207 DOD A 239 SITE 1 AC3 4 DG A 4 DC A 5 RKL A 102 DOD A 212 CRYST1 42.370 42.370 39.420 90.00 90.00 90.00 P 43 21 2 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 0.023602 0.000000 0.000000 0.00000 SCALE2 0.000000 0.023602 0.000000 0.00000 SCALE3 0.000000 0.000000 0.025368 0.00000 HETATM 1 O5' THM A 1 18.105 14.992 15.322 1.00 28.82 O ANISOU 1 O5' THM A 1 3623 3901 3425 754 -267 -580 O HETATM 2 C5' THM A 1 19.455 15.034 14.827 1.00 26.02 C ANISOU 2 C5' THM A 1 3761 2941 3182 516 -248 -914 C HETATM 3 C4' THM A 1 19.729 13.739 14.097 1.00 21.52 C ANISOU 3 C4' THM A 1 3057 2691 2427 258 -181 -489 C HETATM 4 O4' THM A 1 19.610 12.531 14.866 1.00 21.93 O ANISOU 4 O4' THM A 1 3012 2558 2760 339 -307 -251 O HETATM 5 C3' THM A 1 18.918 13.498 12.828 1.00 20.83 C ANISOU 5 C3' THM A 1 2883 2672 2357 352 -199 -388 C HETATM 6 O3' THM A 1 19.464 14.285 11.779 1.00 21.24 O ANISOU 6 O3' THM A 1 2991 2416 2661 145 -322 -380 O HETATM 7 C2' THM A 1 19.058 12.007 12.610 1.00 21.93 C ANISOU 7 C2' THM A 1 3103 2390 2838 269 186 -21 C HETATM 8 C1' THM A 1 19.226 11.452 14.023 1.00 20.50 C ANISOU 8 C1' THM A 1 2920 2295 2572 83 -293 -248 C HETATM 9 N1 THM A 1 18.037 10.833 14.633 1.00 19.97 N ANISOU 9 N1 THM A 1 2461 2598 2526 374 -112 -258 N HETATM 10 C2 THM A 1 18.250 9.763 15.469 1.00 19.31 C ANISOU 10 C2 THM A 1 2613 2646 2077 54 -167 -329 C HETATM 11 O2 THM A 1 19.356 9.298 15.680 1.00 19.66 O ANISOU 11 O2 THM A 1 2336 2863 2270 444 -73 -379 O HETATM 12 N3 THM A 1 17.116 9.248 16.044 1.00 21.12 N ANISOU 12 N3 THM A 1 2504 2807 2712 331 -98 -187 N HETATM 13 C4 THM A 1 15.816 9.678 15.849 1.00 23.69 C ANISOU 13 C4 THM A 1 2785 3210 3006 445 -172 -314 C HETATM 14 O4 THM A 1 14.892 9.124 16.437 1.00 26.98 O ANISOU 14 O4 THM A 1 2657 3842 3752 406 208 -86 O HETATM 15 C5 THM A 1 15.668 10.811 14.971 1.00 24.39 C ANISOU 15 C5 THM A 1 2644 3384 3238 599 -394 -368 C HETATM 16 C5M THM A 1 14.298 11.351 14.714 1.00 30.93 C ANISOU 16 C5M THM A 1 2953 3998 4798 1112 -606 -36 C HETATM 17 C6 THM A 1 16.773 11.349 14.441 1.00 25.18 C ANISOU 17 C6 THM A 1 2791 3521 3253 680 -101 99 C HETATM 18 DO5' THM A 1 17.320 15.235 14.687 1.00 26.02 D HETATM 19 H5'1 THM A 1 20.155 15.151 15.658 1.00 26.23 H HETATM 20 H5'2 THM A 1 19.578 15.880 14.148 1.00 26.23 H HETATM 21 H4' THM A 1 20.784 13.772 13.793 1.00 26.00 H HETATM 22 H3' THM A 1 17.863 13.759 12.986 1.00 25.98 H HETATM 23 H2'1 THM A 1 18.174 11.602 12.116 1.00 25.98 H HETATM 24 H2'2 THM A 1 19.939 11.786 12.005 1.00 25.98 H HETATM 25 H1' THM A 1 20.049 10.726 13.980 1.00 20.72 H HETATM 26 DN3 THM A 1 17.246 8.427 16.663 1.00 21.82 D HETATM 27 HM51 THM A 1 13.588 10.567 14.763 1.00 26.10 H HETATM 28 HM52 THM A 1 14.066 12.084 15.442 1.00 26.10 H HETATM 29 HM53 THM A 1 14.264 11.787 13.752 1.00 26.10 H HETATM 30 H6 THM A 1 16.644 12.183 13.770 1.00 26.00 H