HEADER RNA 25-NOV-20 7KUL TITLE DNA MODIFICATION AT 3' END OF RNA PRIMER COMPLEX WITH GUANOSINE TITLE 2 DINUCLEOTIDE LIGAND G(5')PPP(5')G COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA/RNA (5'-R(*(LKC)P*(LCC)P*(LCC)P*(LCG) COMPND 3 P*AP*CP*UP*UP*AP*AP*GP*UP*C)-D(P*G)-3'); COMPND 4 CHAIN: A, B; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630 KEYWDS RNA, NONENZYMATIC RNA EXTENSION, DNA EXPDTA X-RAY DIFFRACTION AUTHOR Z.FANG,C.GIURGIU,J.W.SZOSTAK REVDAT 4 18-OCT-23 7KUL 1 REMARK REVDAT 3 23-MAR-22 7KUL 1 JRNL REVDAT 2 20-OCT-21 7KUL 1 JRNL REVDAT 1 08-SEP-21 7KUL 0 JRNL AUTH C.GIURGIU,Z.FANG,H.R.M.AITKEN,S.C.KIM,L.PAZIENZA,S.MITTAL, JRNL AUTH 2 J.W.SZOSTAK JRNL TITL STRUCTURE-ACTIVITY RELATIONSHIPS IN NONENZYMATIC JRNL TITL 2 TEMPLATE-DIRECTED RNA SYNTHESIS. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 60 22925 2021 JRNL REFN ESSN 1521-3773 JRNL PMID 34428345 JRNL DOI 10.1002/ANIE.202109714 REMARK 2 REMARK 2 RESOLUTION. 1.64 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.64 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 87.6 REMARK 3 NUMBER OF REFLECTIONS : 12116 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.696 REMARK 3 FREE R VALUE TEST SET COUNT : 569 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) : 1.64 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.68 REMARK 3 REFLECTION IN BIN (WORKING SET) : 454 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 47.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.2140 REMARK 3 BIN FREE R VALUE SET COUNT : 17 REMARK 3 BIN FREE R VALUE : 0.3150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 596 REMARK 3 HETEROGEN ATOMS : 114 REMARK 3 SOLVENT ATOMS : 112 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00100 REMARK 3 B22 (A**2) : 0.00100 REMARK 3 B33 (A**2) : -0.00400 REMARK 3 B12 (A**2) : 0.00100 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): 0.114 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.115 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.064 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.864 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 792 ; 0.023 ; 0.017 REMARK 3 BOND LENGTHS OTHERS (A): 348 ; 0.028 ; 0.024 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1200 ; 2.880 ; 2.010 REMARK 3 BOND ANGLES OTHERS (DEGREES): 818 ; 3.840 ; 3.171 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): 138 ; 0.481 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 400 ; 0.019 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 152 ; 0.001 ; 0.022 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 72 ; 0.090 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 32 ; 0.169 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 311 ; 0.252 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 95 ; 0.166 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 6 ; 0.105 ; 0.200 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): 792 ; 2.091 ; 1.923 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 793 ; 2.090 ; 1.923 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1200 ; 2.940 ; 2.897 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1201 ; 2.939 ; 2.896 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 BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 7KUL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-NOV-20. REMARK 100 THE DEPOSITION ID IS D_1000253077. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-20 REMARK 200 TEMPERATURE (KELVIN) : 99 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13719 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.640 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.64 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.67 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.31400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.300 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: 5UEE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM ACETATE TETRAHYDRATE, REMARK 280 0.1 M SODIUM CACODYLATE TRIHYDRATE PH 6.5, 30% V/V (+/-)-2- REMARK 280 METHYL-2,4-PENTANEDIOL, 50 MM MAGNESIUM CHLORIDE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-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 -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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 251 LIES ON A SPECIAL POSITION. 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 O2A GP3 B 101 O HOH B 201 2.17 REMARK 500 O2A GP3 A 101 O HOH A 201 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 254 O HOH A 254 2565 2.08 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 U A 7 O5' - P - OP2 ANGL. DEV. = -5.8 DEGREES REMARK 500 DG A 14 O5' - P - OP2 ANGL. DEV. = -7.8 DEGREES REMARK 500 U B 7 O5' - P - OP2 ANGL. DEV. = -6.6 DEGREES REMARK 500 DG B 14 O5' - P - OP2 ANGL. DEV. = -7.8 DEGREES 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 104 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 6 OP1 REMARK 620 2 HOH A 247 O 39.9 REMARK 620 3 C B 6 OP1 31.9 9.2 REMARK 620 4 HOH B 247 O 22.9 18.0 12.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 102 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GP3 A 101 O3D REMARK 620 2 GP3 A 101 O2D 79.5 REMARK 620 3 GP3 A 101 O3D 0.0 79.5 REMARK 620 4 GP3 A 101 O2D 79.5 0.0 79.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 107 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GP3 A 101 O2A REMARK 620 2 GP3 A 101 O2B 93.4 REMARK 620 3 GP3 A 101 O3B 85.5 56.8 REMARK 620 4 GP3 A 101 O2G 127.7 93.9 57.1 REMARK 620 5 HOH A 201 O 60.9 152.9 108.8 95.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 102 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GP3 B 101 O3D REMARK 620 2 GP3 B 101 O2D 78.4 REMARK 620 3 GP3 B 101 O3D 100.0 112.2 REMARK 620 4 GP3 B 101 O2D 113.8 96.4 139.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 103 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 214 O REMARK 620 2 HOH A 223 O 90.9 REMARK 620 3 HOH A 253 O 84.1 93.2 REMARK 620 4 HOH B 216 O 102.0 93.3 171.0 REMARK 620 5 HOH B 222 O 91.4 177.0 85.3 87.9 REMARK 620 6 HOH B 252 O 175.2 85.2 93.3 81.1 92.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 104 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 203 O REMARK 620 2 HOH A 227 O 91.7 REMARK 620 3 HOH A 236 O 93.6 88.0 REMARK 620 4 HOH B 232 O 84.1 175.2 94.6 REMARK 620 5 HOH B 240 O 87.2 86.3 174.3 91.1 REMARK 620 6 HOH B 247 O 172.0 94.9 91.0 89.1 88.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 105 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 202 O REMARK 620 2 HOH A 222 O 89.7 REMARK 620 3 HOH A 242 O 101.9 101.0 REMARK 620 4 HOH A 248 O 170.8 95.9 84.1 REMARK 620 5 HOH A 255 O 91.9 89.5 162.6 81.0 REMARK 620 6 HOH A 257 O 89.6 177.6 81.4 84.5 88.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 106 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 215 O REMARK 620 2 HOH A 229 O 79.8 REMARK 620 3 HOH A 256 O 85.1 86.8 REMARK 620 4 HOH B 205 O 74.4 88.5 159.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 107 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GP3 B 101 O2A REMARK 620 2 GP3 B 101 O2B 91.3 REMARK 620 3 GP3 B 101 O3B 85.8 56.8 REMARK 620 4 GP3 B 101 O2G 128.4 94.7 56.7 REMARK 620 5 HOH B 201 O 63.0 152.7 109.0 94.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 106 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 207 O REMARK 620 2 HOH B 212 O 77.6 REMARK 620 3 HOH B 217 O 89.8 76.7 REMARK 620 4 HOH B 253 O 159.9 83.2 80.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 103 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 232 O REMARK 620 2 HOH A 244 O 89.3 REMARK 620 3 HOH A 247 O 90.3 88.0 REMARK 620 4 HOH B 203 O 83.3 86.2 171.4 REMARK 620 5 HOH B 230 O 173.4 87.5 95.4 90.8 REMARK 620 6 HOH B 233 O 95.3 175.3 91.4 94.9 88.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 105 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 202 O REMARK 620 2 HOH B 225 O 91.3 REMARK 620 3 HOH B 239 O 101.7 97.2 REMARK 620 4 HOH B 246 O 177.8 87.4 80.2 REMARK 620 5 HOH B 254 O 91.1 94.4 162.4 87.3 REMARK 620 6 HOH B 255 O 90.8 176.9 80.0 90.7 88.0 REMARK 620 N 1 2 3 4 5 DBREF 7KUL A 1 14 PDB 7KUL 7KUL 1 14 DBREF 7KUL B 1 14 PDB 7KUL 7KUL 1 14 SEQRES 1 A 14 LKC LCC LCC LCG A C U U A A G U C SEQRES 2 A 14 DG SEQRES 1 B 14 LKC LCC LCC LCG A C U U A A G U C SEQRES 2 B 14 DG HET LKC A 1 19 HET LCC A 2 22 HET LCC A 3 22 HET LCG A 4 24 HET LKC B 1 19 HET LCC B 2 22 HET LCC B 3 22 HET LCG B 4 24 HET GP3 A 101 51 HET MG A 102 1 HET MG A 103 1 HET MG A 104 1 HET MG A 105 1 HET MG A 106 1 HET MG A 107 1 HET GP3 B 101 51 HET MG B 102 1 HET MG B 103 1 HET MG B 104 1 HET MG B 105 1 HET MG B 106 1 HET MG B 107 1 HETNAM LKC 4-AMINO-1-[(1S,3R,4R,7S)-7-HYDROXY-1-(HYDROXYMETHYL)-2, HETNAM 2 LKC 5-DIOXABICYCLO[2.2.1]HEPT-3-YL]-5-METHYLPYRIMIDIN- HETNAM 3 LKC 2(1H)-ONE HETNAM LCC [(1R,3R,4R,7S)-7-HYDROXY-3-(5-METHYLCYTOSIN-1-YL)-2,5- HETNAM 2 LCC DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN HETNAM 3 LCC PHOSPHATE HETNAM LCG [(1R,3R,4R,7S)-7-HYDROXY-3-(GUANIN-9-YL)-2,5- HETNAM 2 LCG DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN HETNAM 3 LCG PHOSPHATE HETNAM GP3 DIGUANOSINE-5'-TRIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 1 LKC 2(C11 H15 N3 O5) FORMUL 1 LCC 4(C11 H16 N3 O8 P) FORMUL 1 LCG 2(C11 H14 N5 O8 P) FORMUL 3 GP3 2(C20 H27 N10 O18 P3) FORMUL 4 MG 12(MG 2+) FORMUL 17 HOH *112(H2 O) LINK O3' LKC A 1 P LCC A 2 1555 1555 1.60 LINK O3' LCC A 2 P LCC A 3 1555 1555 1.57 LINK O3' LCC A 3 P LCG A 4 1555 1555 1.62 LINK O3' LCG A 4 P A A 5 1555 1555 1.58 LINK O3' LKC B 1 P LCC B 2 1555 1555 1.61 LINK O3' LCC B 2 P LCC B 3 1555 1555 1.58 LINK O3' LCC B 3 P LCG B 4 1555 1555 1.64 LINK O3' LCG B 4 P A B 5 1555 1555 1.58 LINK OP1 C A 6 MG MG B 104 1555 2565 2.60 LINK O3D GP3 A 101 MG MG B 102 1555 1555 2.10 LINK O2D GP3 A 101 MG MG B 102 1555 1555 2.07 LINK O3D GP3 A 101 MG MG B 102 1555 2565 2.45 LINK O2D GP3 A 101 MG MG B 102 1555 3455 2.36 LINK O2A GP3 A 101 MG MG B 107 1555 1555 1.93 LINK O2B GP3 A 101 MG MG B 107 1555 1555 1.92 LINK O3B GP3 A 101 MG MG B 107 1555 1555 2.94 LINK O2G GP3 A 101 MG MG B 107 1555 1555 1.93 LINK MG MG A 102 O3D GP3 B 101 1555 1555 2.10 LINK MG MG A 102 O2D GP3 B 101 1555 1555 2.08 LINK MG MG A 102 O3D GP3 B 101 1555 2565 2.43 LINK MG MG A 102 O2D GP3 B 101 1555 3455 2.37 LINK MG MG A 103 O HOH A 214 1555 1555 2.12 LINK MG MG A 103 O HOH A 223 1555 1555 2.06 LINK MG MG A 103 O HOH A 253 1555 1555 2.09 LINK MG MG A 103 O HOH B 216 1555 1555 2.16 LINK MG MG A 103 O HOH B 222 1555 1555 2.10 LINK MG MG A 103 O HOH B 252 1555 1555 2.08 LINK MG MG A 104 O HOH A 203 1555 1555 2.21 LINK MG MG A 104 O HOH A 227 1555 3455 2.08 LINK MG MG A 104 O HOH A 236 1555 1555 2.02 LINK MG MG A 104 O HOH B 232 1555 1555 2.11 LINK MG MG A 104 O HOH B 240 1555 1555 2.20 LINK MG MG A 104 O HOH B 247 1555 1555 1.97 LINK MG MG A 105 O HOH A 202 1555 1555 2.04 LINK MG MG A 105 O HOH A 222 1555 1555 2.05 LINK MG MG A 105 O HOH A 242 1555 1555 2.05 LINK MG MG A 105 O HOH A 248 1555 1555 2.13 LINK MG MG A 105 O HOH A 255 1555 1555 2.05 LINK MG MG A 105 O HOH A 257 1555 1555 1.88 LINK MG MG A 106 O HOH A 215 1555 1555 2.13 LINK MG MG A 106 O HOH A 229 1555 1555 2.22 LINK MG MG A 106 O HOH A 256 1555 1555 2.09 LINK MG MG A 106 O HOH B 205 1555 1555 1.92 LINK MG MG A 107 O2A GP3 B 101 1555 1555 1.93 LINK MG MG A 107 O2B GP3 B 101 1555 1555 1.93 LINK MG MG A 107 O3B GP3 B 101 1555 1555 2.97 LINK MG MG A 107 O2G GP3 B 101 1555 1555 1.93 LINK MG MG A 107 O HOH B 201 1555 1555 2.20 LINK O HOH A 201 MG MG B 107 1555 1555 2.34 LINK O HOH A 207 MG MG B 106 1555 1555 1.88 LINK O HOH A 232 MG MG B 103 1555 1555 2.13 LINK O HOH A 244 MG MG B 103 1555 1555 2.15 LINK O HOH A 247 MG MG B 103 1555 1555 1.94 LINK O HOH A 247 MG MG B 104 3455 1555 2.74 LINK OP1 C B 6 MG MG B 104 1555 1555 2.64 LINK MG MG B 103 O HOH B 203 1555 1555 2.20 LINK MG MG B 103 O HOH B 230 1555 2565 2.07 LINK MG MG B 103 O HOH B 233 1555 1555 2.02 LINK MG MG B 104 O HOH B 247 1555 1555 2.73 LINK MG MG B 105 O HOH B 202 1555 1555 2.06 LINK MG MG B 105 O HOH B 225 1555 1555 2.04 LINK MG MG B 105 O HOH B 239 1555 1555 2.14 LINK MG MG B 105 O HOH B 246 1555 1555 2.07 LINK MG MG B 105 O HOH B 254 1555 1555 2.06 LINK MG MG B 105 O HOH B 255 1555 1555 1.81 LINK MG MG B 106 O HOH B 212 1555 1555 2.10 LINK MG MG B 106 O HOH B 217 1555 1555 2.27 LINK MG MG B 106 O HOH B 253 1555 1555 2.11 CRYST1 47.443 47.443 82.803 90.00 90.00 120.00 P 3 2 1 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 0.021078 0.012169 0.000000 0.00000 SCALE2 0.000000 0.024339 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012077 0.00000 HETATM 1 N1 LKC A 1 -17.997 -1.279 39.485 1.00 13.11 N0 HETATM 2 C2 LKC A 1 -18.327 0.022 39.694 1.00 12.11 C0 HETATM 3 N3 LKC A 1 -17.421 0.944 39.846 1.00 11.38 N0 HETATM 4 C4 LKC A 1 -16.139 0.585 39.758 1.00 14.35 C0 HETATM 5 C5 LKC A 1 -15.712 -0.754 39.526 1.00 14.75 C0 HETATM 6 C6 LKC A 1 -16.703 -1.671 39.389 1.00 13.37 C0 HETATM 7 O2 LKC A 1 -19.519 0.271 39.728 1.00 10.50 O0 HETATM 8 N4 LKC A 1 -15.252 1.533 39.922 1.00 15.53 N0 HETATM 9 C1' LKC A 1 -19.088 -2.262 39.373 1.00 14.98 C0 HETATM 10 C2' LKC A 1 -19.778 -2.375 38.061 1.00 15.66 C0 HETATM 11 C3' LKC A 1 -18.843 -3.254 37.287 1.00 15.25 C0 HETATM 12 C4' LKC A 1 -18.978 -4.343 38.395 1.00 15.69 C0 HETATM 13 O4' LKC A 1 -18.457 -3.577 39.533 1.00 15.84 O0 HETATM 14 O3' LKC A 1 -19.369 -3.682 36.059 1.00 17.19 O0 HETATM 15 C5' LKC A 1 -18.160 -5.611 38.128 1.00 15.91 C0 HETATM 16 O5' LKC A 1 -16.768 -5.177 38.026 1.00 19.53 O0 HETATM 17 C5A LKC A 1 -14.377 -1.215 39.427 1.00 16.03 C0 HETATM 18 O2' LKC A 1 -20.993 -3.167 38.267 1.00 16.90 O0 HETATM 19 C6' LKC A 1 -20.445 -4.554 38.434 1.00 16.08 C0 HETATM 20 O5' LCC A 2 -20.171 -1.628 34.909 1.00 15.27 O0 HETATM 21 C5' LCC A 2 -21.565 -1.722 34.928 1.00 14.35 C0 HETATM 22 C4' LCC A 2 -21.989 -0.317 35.299 1.00 13.49 C0 HETATM 23 O4' LCC A 2 -21.429 0.235 36.509 1.00 12.06 O0 HETATM 24 C1' LCC A 2 -21.510 1.691 36.425 1.00 11.61 C0 HETATM 25 N1 LCC A 2 -20.194 2.227 36.554 1.00 10.17 N0 HETATM 26 C6 LCC A 2 -19.037 1.448 36.422 1.00 9.68 C0 HETATM 27 C5 LCC A 2 -17.840 2.054 36.616 1.00 9.54 C0 HETATM 28 C5M LCC A 2 -16.700 1.274 36.428 1.00 10.63 C0 HETATM 29 C4 LCC A 2 -17.818 3.436 36.926 1.00 9.01 C0 HETATM 30 N4 LCC A 2 -16.665 3.955 37.118 1.00 9.64 N0 HETATM 31 N3 LCC A 2 -18.940 4.184 37.073 1.00 9.08 N0 HETATM 32 C2 LCC A 2 -20.102 3.563 36.877 1.00 9.15 C0 HETATM 33 O2 LCC A 2 -21.184 4.140 36.931 1.00 9.68 O0 HETATM 34 C3' LCC A 2 -21.494 0.736 34.293 1.00 13.26 C0 HETATM 35 C2' LCC A 2 -22.168 1.827 35.093 1.00 11.79 C0 HETATM 36 O2' LCC A 2 -23.508 1.356 35.255 1.00 15.22 O0 HETATM 37 O3' LCC A 2 -22.121 0.556 32.999 1.00 15.50 O0 HETATM 38 C6' LCC A 2 -23.490 -0.159 35.291 1.00 14.20 C0 HETATM 39 P LCC A 2 -19.235 -2.876 34.684 1.00 16.83 P0 HETATM 40 O1P LCC A 2 -17.850 -2.449 34.531 1.00 14.68 O0 HETATM 41 O2P LCC A 2 -19.903 -3.783 33.713 1.00 15.40 O0 HETATM 42 O5' LCC A 3 -21.966 2.738 31.816 1.00 12.67 O0 HETATM 43 C5' LCC A 3 -23.342 3.113 31.788 1.00 10.07 C0 HETATM 44 C4' LCC A 3 -23.316 4.564 32.243 1.00 9.23 C0 HETATM 45 O4' LCC A 3 -22.675 4.850 33.510 1.00 9.20 O0 HETATM 46 C1' LCC A 3 -22.180 6.183 33.514 1.00 8.67 C0 HETATM 47 N1 LCC A 3 -20.753 6.204 33.674 1.00 8.51 N0 HETATM 48 C6 LCC A 3 -19.972 5.040 33.517 1.00 8.17 C0 HETATM 49 C5 LCC A 3 -18.617 5.216 33.708 1.00 8.50 C0 HETATM 50 C5M LCC A 3 -17.816 4.085 33.545 1.00 9.63 C0 HETATM 51 C4 LCC A 3 -18.123 6.448 34.136 1.00 9.05 C0 HETATM 52 N4 LCC A 3 -16.842 6.585 34.370 1.00 10.65 N0 HETATM 53 N3 LCC A 3 -18.931 7.541 34.244 1.00 8.62 N0 HETATM 54 C2 LCC A 3 -20.218 7.385 33.988 1.00 7.79 C0 HETATM 55 O2 LCC A 3 -20.965 8.403 34.090 1.00 8.26 O0 HETATM 56 C3' LCC A 3 -22.560 5.547 31.322 1.00 8.74 C0 HETATM 57 C2' LCC A 3 -22.804 6.711 32.232 1.00 8.82 C0 HETATM 58 O2' LCC A 3 -24.242 6.667 32.367 1.00 9.05 O0 HETATM 59 O3' LCC A 3 -23.183 5.560 30.057 1.00 9.75 O0 HETATM 60 C6' LCC A 3 -24.668 5.175 32.254 1.00 9.03 C0 HETATM 61 P LCC A 3 -21.478 1.188 31.710 1.00 13.07 P0 HETATM 62 O1P LCC A 3 -20.034 1.343 31.713 1.00 12.58 O0 HETATM 63 O2P LCC A 3 -22.178 0.586 30.625 1.00 14.88 O0 HETATM 64 P LCG A 4 -22.387 5.981 28.705 1.00 9.54 P0 HETATM 65 OP1 LCG A 4 -23.481 5.745 27.675 1.00 9.94 O0 HETATM 66 O5' LCG A 4 -22.059 7.508 28.982 1.00 8.57 O0 HETATM 67 C5' LCG A 4 -23.105 8.477 28.898 1.00 8.00 C0 HETATM 68 C3' LCG A 4 -21.205 10.097 28.314 1.00 7.84 C0 HETATM 69 C6' LCG A 4 -23.312 11.088 29.176 1.00 8.25 C0 HETATM 70 N9 LCG A 4 -19.478 10.107 30.810 1.00 7.57 N0 HETATM 71 C8 LCG A 4 -19.228 8.780 30.841 1.00 7.63 C0 HETATM 72 C4 LCG A 4 -18.351 10.728 31.150 1.00 7.54 C0 HETATM 73 N7 LCG A 4 -17.941 8.595 31.171 1.00 8.40 N0 HETATM 74 C5 LCG A 4 -17.408 9.776 31.426 1.00 8.12 C0 HETATM 75 C6 LCG A 4 -16.168 10.165 31.826 1.00 9.59 C0 HETATM 76 C2' LCG A 4 -20.894 11.341 29.070 1.00 7.81 C0 HETATM 77 O6 LCG A 4 -15.218 9.427 32.124 1.00 11.08 O0 HETATM 78 C4' LCG A 4 -22.389 9.801 29.263 1.00 7.75 C0 HETATM 79 C1' LCG A 4 -20.671 10.801 30.482 1.00 7.81 C0 HETATM 80 C2 LCG A 4 -16.936 12.459 31.633 1.00 8.51 C0 HETATM 81 N1 LCG A 4 -15.972 11.503 31.899 1.00 8.39 N0 HETATM 82 O4' LCG A 4 -21.723 9.845 30.589 1.00 7.54 O0 HETATM 83 OP2 LCG A 4 -21.173 5.236 28.600 1.00 8.89 O0 HETATM 84 N2 LCG A 4 -16.596 13.734 31.710 1.00 7.62 N0 HETATM 85 N3 LCG A 4 -18.161 12.065 31.223 1.00 7.24 N0 HETATM 86 O2' LCG A 4 -22.144 12.095 29.159 1.00 8.09 O0 HETATM 87 O3' LCG A 4 -21.693 10.355 27.003 1.00 7.78 O0