HEADER RNA 11-MAY-25 9OKZ TITLE 16MER SELF-COMPLEMENTARY DUPLEX RNA WITH DG:S(2)C PAIR SEQUENCE 2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA/RNA (5'-R(*AP*GP*AP*GP*AP*A)-D(P*G)-R(P*AP*UP*(RSP) COMPND 3 P*UP*UP*CP*UP*CP*U)-3'); COMPND 4 CHAIN: A, B, C, D, E, F; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630 KEYWDS DEOXYRIBO-PURINE, 2-THIOCYTIDINE, RNA DUPLEX, ORIGIN OF LIFE, RNA EXPDTA X-RAY DIFFRACTION AUTHOR Z.FANG,J.W.SZOSTAK REVDAT 2 26-NOV-25 9OKZ 1 JRNL REVDAT 1 22-OCT-25 9OKZ 0 JRNL AUTH Z.FANG,O.ACIKGOZ,X.JIA,J.ESSEX,R.WEN,J.W.SZOSTAK JRNL TITL IMPACT OF 2'-DEOXYRIBO-PURINE SUBSTRATES ON NONENZYMATIC RNA JRNL TITL 2 TEMPLATE-DIRECTED PRIMER EXTENSION. JRNL REF NUCLEIC ACIDS RES. V. 53 2025 JRNL REFN ESSN 1362-4962 JRNL PMID 41261857 JRNL DOI 10.1093/NAR/GKAF1228 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Z.FANG,O.ACIKGOZ,X.JIA,J.ESSEX,R.WEN,J.W.SZOSTAK REMARK 1 TITL IMPACT OF 2'-DEOXYRIBO-PURINE SUBSTRATES ON NONENZYMATIC RNA REMARK 1 TITL 2 TEMPLATE-DIRECTED PRIMER EXTENSION. REMARK 1 REF BIORXIV 2025 REMARK 1 REFN ISSN 2692-8205 REMARK 1 PMID 40909494 REMARK 1 DOI 10.1101/2025.08.29.673048 REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0425 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) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.4 REMARK 3 NUMBER OF REFLECTIONS : 17519 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) : 0.187 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.447 REMARK 3 FREE R VALUE TEST SET COUNT : 779 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) : 1.92 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 653 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 50.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE SET COUNT : 53 REMARK 3 BIN FREE R VALUE : 0.3540 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 2010 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 269 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.93 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) : 0.00300 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): 0.205 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.190 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.117 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.198 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.904 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2244 ; 0.007 ; 0.011 REMARK 3 BOND LENGTHS OTHERS (A): 936 ; 0.002 ; 0.019 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3480 ; 2.058 ; 1.897 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2286 ; 0.565 ; 1.728 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): 468 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1098 ; 0.015 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 354 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 303 ; 0.106 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 51 ; 0.167 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 821 ; 0.244 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 283 ; 0.228 ; 0.200 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): 2244 ; 1.351 ; 1.746 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2245 ; 1.351 ; 1.745 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3480 ; 2.046 ; 3.186 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3481 ; 2.046 ; 3.185 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 9OKZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAY-25. REMARK 100 THE DEPOSITION ID IS D_1000295539. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-APR-25 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) : 1.00003 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 S 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18877 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.919 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 (%) : 99.3 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 32.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.57000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.800 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES PH 6.5, 0.06 M MANGANESE REMARK 280 (II) CHLORIDE, 15.00 % W/V POLYETHYLENE GLYCOL 20,000, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 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 40.90433 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 81.80867 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: 1540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 1460 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL 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 350 REMARK 350 BIOMOLECULE: 3 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: 1580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F 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 B 233 O HOH B 243 2.12 REMARK 500 O HOH A 130 O HOH A 149 2.16 REMARK 500 O HOH C 144 O HOH D 142 2.16 REMARK 500 O HOH C 137 O HOH C 143 2.16 REMARK 500 O5' A E 1 O HOH E 201 2.19 REMARK 500 O HOH A 145 O HOH A 149 2.19 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 A A 3 O5' - P - OP2 ANGL. DEV. = -6.1 DEGREES REMARK 500 DG A 7 O4' - C4' - C3' ANGL. DEV. = -2.8 DEGREES REMARK 500 DG A 7 C4' - C3' - C2' ANGL. DEV. = -4.5 DEGREES REMARK 500 A A 8 O3' - P - OP2 ANGL. DEV. = 7.2 DEGREES REMARK 500 U A 12 O5' - P - OP2 ANGL. DEV. = -7.5 DEGREES REMARK 500 A B 8 O3' - P - OP2 ANGL. DEV. = 6.7 DEGREES REMARK 500 C B 13 O3' - P - OP2 ANGL. DEV. = 10.2 DEGREES REMARK 500 DG C 7 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 U C 16 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG E 7 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 U E 14 O5' - P - OP1 ANGL. DEV. = 7.9 DEGREES REMARK 500 U E 14 O5' - P - OP2 ANGL. DEV. = -7.3 DEGREES REMARK 500 DG F 7 O3' - P - OP2 ANGL. DEV. = 9.2 DEGREES REMARK 500 DG F 7 O5' - P - OP2 ANGL. DEV. = -6.7 DEGREES REMARK 500 DG F 7 O4' - C4' - C3' ANGL. DEV. = -2.9 DEGREES REMARK 500 DG F 7 C4' - C3' - C2' ANGL. DEV. = -4.4 DEGREES REMARK 500 DG F 7 O4' - C1' - N9 ANGL. DEV. = 1.9 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 MN B 101 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B 16 O3' REMARK 620 2 U B 16 O2' 57.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN E 101 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH E 218 O REMARK 620 2 HOH E 227 O 79.0 REMARK 620 3 HOH E 235 O 81.1 70.9 REMARK 620 4 HOH E 237 O 71.7 150.0 98.0 REMARK 620 5 HOH E 245 O 133.1 107.7 59.6 88.5 REMARK 620 6 HOH F 111 O 116.7 143.0 141.1 60.7 86.1 REMARK 620 N 1 2 3 4 5 DBREF 9OKZ A 1 16 PDB 9OKZ 9OKZ 1 16 DBREF 9OKZ B 1 16 PDB 9OKZ 9OKZ 1 16 DBREF 9OKZ C 1 16 PDB 9OKZ 9OKZ 1 16 DBREF 9OKZ D 1 16 PDB 9OKZ 9OKZ 1 16 DBREF 9OKZ E 1 16 PDB 9OKZ 9OKZ 1 16 DBREF 9OKZ F 1 16 PDB 9OKZ 9OKZ 1 16 SEQRES 1 A 16 A G A G A A DG A U RSP U U C SEQRES 2 A 16 U C U SEQRES 1 B 16 A G A G A A DG A U RSP U U C SEQRES 2 B 16 U C U SEQRES 1 C 16 A G A G A A DG A U RSP U U C SEQRES 2 C 16 U C U SEQRES 1 D 16 A G A G A A DG A U RSP U U C SEQRES 2 D 16 U C U SEQRES 1 E 16 A G A G A A DG A U RSP U U C SEQRES 2 E 16 U C U SEQRES 1 F 16 A G A G A A DG A U RSP U U C SEQRES 2 F 16 U C U HET RSP A 10 20 HET RSP B 10 20 HET RSP C 10 20 HET RSP D 10 20 HET RSP E 10 20 HET RSP F 10 20 HET MN B 101 1 HET MN E 101 1 HETNAM RSP 4-AMINO-1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL) HETNAM 2 RSP PYRIMIDINE-2(1H)-THIONE HETNAM MN MANGANESE (II) ION FORMUL 1 RSP 6(C9 H14 N3 O7 P S) FORMUL 7 MN 2(MN 2+) FORMUL 9 HOH *269(H2 O) LINK O3' U A 9 P RSP A 10 1555 1555 1.59 LINK O3' RSP A 10 P U A 11 1555 1555 1.59 LINK O3' U B 9 P RSP B 10 1555 1555 1.61 LINK O3' RSP B 10 P U B 11 1555 1555 1.61 LINK O3' U C 9 P RSP C 10 1555 1555 1.61 LINK O3' RSP C 10 P U C 11 1555 1555 1.61 LINK O3' U D 9 P RSP D 10 1555 1555 1.60 LINK O3' RSP D 10 P U D 11 1555 1555 1.60 LINK O3' U E 9 P RSP E 10 1555 1555 1.61 LINK O3' RSP E 10 P U E 11 1555 1555 1.60 LINK O3' U F 9 P RSP F 10 1555 1555 1.62 LINK O3' RSP F 10 P U F 11 1555 1555 1.61 LINK O3' U B 16 MN MN B 101 1555 1555 2.67 LINK O2' U B 16 MN MN B 101 1555 1555 2.72 LINK MN MN E 101 O HOH E 218 1555 1555 2.69 LINK MN MN E 101 O HOH E 227 1555 1555 2.74 LINK MN MN E 101 O HOH E 235 1555 1555 2.63 LINK MN MN E 101 O HOH E 237 1555 1555 2.73 LINK MN MN E 101 O HOH E 245 1555 1555 2.53 LINK MN MN E 101 O HOH F 111 1555 1555 2.67 CRYST1 42.502 42.502 122.713 90.00 90.00 120.00 P 31 18 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 0.023528 0.013584 0.000000 0.00000 SCALE2 0.000000 0.027168 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008149 0.00000 CONECT 184 196 CONECT 196 184 213 214 215 CONECT 197 198 204 205 CONECT 198 197 199 200 CONECT 199 198 CONECT 200 198 201 CONECT 201 200 202 203 CONECT 202 201 CONECT 203 201 204 CONECT 204 197 203 CONECT 205 197 206 211 CONECT 206 205 207 208 CONECT 207 206 CONECT 208 206 209 210 CONECT 209 208 216 CONECT 210 208 211 212 CONECT 211 205 210 CONECT 212 210 213 CONECT 213 196 212 CONECT 214 196 CONECT 215 196 CONECT 216 209 CONECT 520 532 CONECT 532 520 549 550 551 CONECT 533 534 540 541 CONECT 534 533 535 536 CONECT 535 534 CONECT 536 534 537 CONECT 537 536 538 539 CONECT 538 537 CONECT 539 537 540 CONECT 540 533 539 CONECT 541 533 542 547 CONECT 542 541 543 544 CONECT 543 542 CONECT 544 542 545 546 CONECT 545 544 552 CONECT 546 544 547 548 CONECT 547 541 546 CONECT 548 546 549 CONECT 549 532 548 CONECT 550 532 CONECT 551 532 CONECT 552 545 CONECT 660 2017 CONECT 662 2017 CONECT 856 868 CONECT 868 856 885 886 887 CONECT 869 870 876 877 CONECT 870 869 871 872 CONECT 871 870 CONECT 872 870 873 CONECT 873 872 874 875 CONECT 874 873 CONECT 875 873 876 CONECT 876 869 875 CONECT 877 869 878 883 CONECT 878 877 879 880 CONECT 879 878 CONECT 880 878 881 882 CONECT 881 880 888 CONECT 882 880 883 884 CONECT 883 877 882 CONECT 884 882 885 CONECT 885 868 884 CONECT 886 868 CONECT 887 868 CONECT 888 881 CONECT 1192 1204 CONECT 1204 1192 1221 1222 1223 CONECT 1205 1206 1212 1213 CONECT 1206 1205 1207 1208 CONECT 1207 1206 CONECT 1208 1206 1209 CONECT 1209 1208 1210 1211 CONECT 1210 1209 CONECT 1211 1209 1212 CONECT 1212 1205 1211 CONECT 1213 1205 1214 1219 CONECT 1214 1213 1215 1216 CONECT 1215 1214 CONECT 1216 1214 1217 1218 CONECT 1217 1216 1224 CONECT 1218 1216 1219 1220 CONECT 1219 1213 1218 CONECT 1220 1218 1221 CONECT 1221 1204 1220 CONECT 1222 1204 CONECT 1223 1204 CONECT 1224 1217 CONECT 1528 1540 CONECT 1540 1528 1557 1558 1559 CONECT 1541 1542 1548 1549 CONECT 1542 1541 1543 1544 CONECT 1543 1542 CONECT 1544 1542 1545 CONECT 1545 1544 1546 1547 CONECT 1546 1545 CONECT 1547 1545 1548 CONECT 1548 1541 1547 CONECT 1549 1541 1550 1555 CONECT 1550 1549 1551 1552 CONECT 1551 1550 CONECT 1552 1550 1553 1554 CONECT 1553 1552 1560 CONECT 1554 1552 1555 1556 CONECT 1555 1549 1554 CONECT 1556 1554 1557 CONECT 1557 1540 1556 CONECT 1558 1540 CONECT 1559 1540 CONECT 1560 1553 CONECT 1864 1876 CONECT 1876 1864 1893 1894 1895 CONECT 1877 1878 1884 1885 CONECT 1878 1877 1879 1880 CONECT 1879 1878 CONECT 1880 1878 1881 CONECT 1881 1880 1882 1883 CONECT 1882 1881 CONECT 1883 1881 1884 CONECT 1884 1877 1883 CONECT 1885 1877 1886 1891 CONECT 1886 1885 1887 1888 CONECT 1887 1886 CONECT 1888 1886 1889 1890 CONECT 1889 1888 1896 CONECT 1890 1888 1891 1892 CONECT 1891 1885 1890 CONECT 1892 1890 1893 CONECT 1893 1876 1892 CONECT 1894 1876 CONECT 1895 1876 CONECT 1896 1889 CONECT 2017 660 662 CONECT 2018 2230 2239 2247 2249 CONECT 2018 2257 2270 CONECT 2230 2018 CONECT 2239 2018 CONECT 2247 2018 CONECT 2249 2018 CONECT 2257 2018 CONECT 2270 2018 MASTER 341 0 8 0 0 0 0 6 2281 6 143 12 END