HEADER RNA 25-JAN-18 6C8O TITLE RNA-ACTIVATED 2-AIPG MONOMER, 3H SOAKING COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*(LCC)P*(LCC)P*(LCC)P*(LCG) COMPND 3 P*AP*CP*UP*UP*AP*AP*GP*UP*CP*GP*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, ACTIVATED MONOMER EXPDTA X-RAY DIFFRACTION AUTHOR W.ZHANG,J.W.SZOSTAK REVDAT 4 04-OCT-23 6C8O 1 LINK REVDAT 3 20-NOV-19 6C8O 1 REMARK REVDAT 2 31-OCT-18 6C8O 1 JRNL REVDAT 1 30-MAY-18 6C8O 0 JRNL AUTH W.ZHANG,T.WALTON,L.LI,J.W.SZOSTAK JRNL TITL CRYSTALLOGRAPHIC OBSERVATION OF NONENZYMATIC RNA PRIMER JRNL TITL 2 EXTENSION. JRNL REF ELIFE V. 7 2018 JRNL REFN ESSN 2050-084X JRNL PMID 29851379 JRNL DOI 10.7554/ELIFE.36422 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 8840 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) : 0.234 REMARK 3 R VALUE (WORKING SET) : 0.231 REMARK 3 FREE R VALUE : 0.282 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 456 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 609 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.59 REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE SET COUNT : 43 REMARK 3 BIN FREE R VALUE : 0.3820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 644 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 35 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.81 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.03000 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): 0.155 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.154 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.114 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.032 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 780 ; 0.024 ; 0.016 REMARK 3 BOND LENGTHS OTHERS (A): 324 ; 0.071 ; 0.024 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1208 ; 2.783 ; 1.865 REMARK 3 BOND ANGLES OTHERS (DEGREES): 798 ; 3.947 ; 3.194 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): 136 ; 0.142 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 382 ; 0.015 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 132 ; 0.002 ; 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): 778 ; 3.871 ; 3.999 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 776 ; 3.781 ; 3.981 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1208 ; 5.435 ; 5.987 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 1130 ; 5.700 ;37.035 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 1121 ; 5.533 ;36.855 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 : NULL 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 6C8O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1000232285. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-MAY-16 REMARK 200 TEMPERATURE (KELVIN) : 99 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 130 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9369 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 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 (%) : 99.7 REMARK 200 DATA REDUNDANCY : 8.600 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.9100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.53900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.380 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: 5DHC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% V/V (+/-)-2-METHYL-2,4 REMARK 280 -PENTANEDIOL, 0.040 M SODIUM CACODYLATE TRIHYDRATE PH 7.0, 0.012 REMARK 280 M SPERMINE TETRAHYDROCHLORIDE, 0.080 M SODIUM CHLORIDE, 0.020 M REMARK 280 MAGNESIUM CHLORIDE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 291K 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: 3010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 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 MG MG A 104 LIES ON A SPECIAL POSITION. REMARK 375 MG MG B 102 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 208 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 215 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 212 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 213 LIES ON A SPECIAL POSITION. 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 LCC A 2 O3' LCC A 3 P 0.074 REMARK 500 LCC B 3 O3' LCG B 4 P 0.102 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 LCC A 2 C3' - O3' - P ANGL. DEV. = -11.1 DEGREES REMARK 500 LCC B 1 C3' - O3' - P ANGL. DEV. = -7.3 DEGREES REMARK 500 LCC B 2 O3' - P - O5' ANGL. DEV. = 14.8 DEGREES REMARK 500 LCC B 2 C3' - O3' - P ANGL. DEV. = -12.4 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 A 104 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 15 O3' REMARK 620 2 G A 15 O2' 66.9 REMARK 620 3 G A 15 O3' 0.0 66.9 REMARK 620 4 G A 15 O2' 66.9 0.0 66.9 REMARK 620 N 1 2 3 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 HOH A 202 O REMARK 620 2 HOH A 211 O 93.7 REMARK 620 3 HOH A 214 O 84.6 88.6 REMARK 620 4 HOH B 207 O 84.8 172.5 84.0 REMARK 620 5 HOH B 208 O 93.3 90.2 177.6 97.1 REMARK 620 6 HOH B 215 O 174.4 90.7 91.9 90.4 90.2 REMARK 620 N 1 2 3 4 5 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 212 O REMARK 620 2 HOH A 213 O 96.4 REMARK 620 3 HOH A 217 O 90.2 91.0 REMARK 620 4 HOH B 202 O 90.0 84.8 175.8 REMARK 620 5 HOH B 209 O 89.9 172.1 93.8 90.5 REMARK 620 6 HOH B 211 O 175.3 84.9 94.3 85.6 88.5 REMARK 620 N 1 2 3 4 5 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 G B 15 O3' REMARK 620 2 G B 15 O2' 66.8 REMARK 620 3 G B 15 O3' 0.0 66.8 REMARK 620 4 G B 15 O2' 66.8 0.0 66.8 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EQ4 A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EQ4 B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 102 DBREF 6C8O A 1 15 PDB 6C8O 6C8O 1 15 DBREF 6C8O B 1 15 PDB 6C8O 6C8O 1 15 SEQRES 1 A 15 LCC LCC LCC LCG A C U U A A G U C SEQRES 2 A 15 G G SEQRES 1 B 15 LCC LCC LCC LCG A C U U A A G U C SEQRES 2 B 15 G G HET LCC A 1 19 HET LCC A 2 22 HET LCC A 3 22 HET LCG A 4 24 HET LCC B 1 19 HET LCC B 2 22 HET LCC B 3 22 HET LCG B 4 24 HET EQ4 A 101 29 HET MG A 102 1 HET MG A 103 1 HET MG A 104 1 HET EQ4 B 101 29 HET MG B 102 1 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 EQ4 5'-O-[(R)-(2-AMINO-1H-IMIDAZOL-1-YL)(HYDROXY) HETNAM 2 EQ4 PHOSPHORYL]GUANOSINE HETNAM MG MAGNESIUM ION FORMUL 1 LCC 6(C11 H16 N3 O8 P) FORMUL 1 LCG 2(C11 H14 N5 O8 P) FORMUL 3 EQ4 2(C13 H17 N8 O7 P) FORMUL 4 MG 4(MG 2+) FORMUL 9 HOH *35(H2 O) LINK O3' LCC A 1 P LCC A 2 1555 1555 1.65 LINK O3' LCC A 2 P LCC A 3 1555 1555 1.68 LINK O3' LCC A 3 P LCG A 4 1555 1555 1.66 LINK O3' LCG A 4 P A A 5 1555 1555 1.56 LINK O3' LCC B 1 P LCC B 2 1555 1555 1.66 LINK O3' LCC B 2 P LCC B 3 1555 1555 1.64 LINK O3' LCC B 3 P LCG B 4 1555 1555 1.71 LINK O3' LCG B 4 P A B 5 1555 1555 1.60 LINK O3' G A 15 MG MG A 104 1555 1555 2.50 LINK O2' G A 15 MG MG A 104 1555 1555 2.35 LINK O3' G A 15 MG MG A 104 1555 2655 2.50 LINK O2' G A 15 MG MG A 104 1555 2655 2.35 LINK MG MG A 102 O HOH A 202 1555 1555 2.11 LINK MG MG A 102 O HOH A 211 1555 1555 2.00 LINK MG MG A 102 O HOH A 214 1555 3665 2.06 LINK MG MG A 102 O HOH B 207 1555 1555 2.03 LINK MG MG A 102 O HOH B 208 1555 1555 2.10 LINK MG MG A 102 O HOH B 215 1555 1555 1.88 LINK MG MG A 103 O HOH A 212 1555 1555 2.11 LINK MG MG A 103 O HOH A 213 1555 1555 2.04 LINK MG MG A 103 O HOH A 217 1555 1555 1.86 LINK MG MG A 103 O HOH B 202 1555 1555 2.13 LINK MG MG A 103 O HOH B 209 1555 1555 1.94 LINK MG MG A 103 O HOH B 211 1555 2655 2.05 LINK O3' G B 15 MG MG B 102 1555 1555 2.51 LINK O2' G B 15 MG MG B 102 1555 1555 2.35 LINK O3' G B 15 MG MG B 102 1555 3665 2.46 LINK O2' G B 15 MG MG B 102 1555 2655 2.31 SITE 1 AC1 3 LCC A 1 LCC A 2 G B 15 SITE 1 AC2 6 HOH A 202 HOH A 211 HOH A 214 HOH B 207 SITE 2 AC2 6 HOH B 208 HOH B 215 SITE 1 AC3 6 HOH A 212 HOH A 213 HOH A 217 HOH B 202 SITE 2 AC3 6 HOH B 209 HOH B 211 SITE 1 AC4 1 G A 15 SITE 1 AC5 3 G A 15 LCC B 1 LCC B 2 SITE 1 AC6 1 G B 15 CRYST1 46.557 46.557 83.343 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 0.021479 0.012401 0.000000 0.00000 SCALE2 0.000000 0.024802 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011999 0.00000 HETATM 1 O5' LCC A 1 31.047 -5.234 79.901 1.00 45.46 O HETATM 2 C5' LCC A 1 29.645 -5.645 79.864 1.00 38.81 C HETATM 3 C4' LCC A 1 28.841 -4.374 80.247 1.00 38.85 C HETATM 4 O4' LCC A 1 29.291 -3.637 81.398 1.00 40.53 O HETATM 5 C1' LCC A 1 28.741 -2.291 81.250 1.00 38.16 C HETATM 6 N1 LCC A 1 29.809 -1.247 81.387 1.00 34.33 N HETATM 7 C6 LCC A 1 31.183 -1.577 81.266 1.00 34.22 C HETATM 8 C5 LCC A 1 32.130 -0.583 81.450 1.00 41.22 C HETATM 9 C5M LCC A 1 33.504 -0.866 81.332 1.00 45.21 C HETATM 10 C4 LCC A 1 31.652 0.708 81.741 1.00 39.68 C HETATM 11 N4 LCC A 1 32.534 1.680 81.924 1.00 43.69 N HETATM 12 N3 LCC A 1 30.315 0.953 81.832 1.00 38.87 N HETATM 13 C2 LCC A 1 29.393 -0.005 81.673 1.00 33.89 C HETATM 14 O2 LCC A 1 28.170 0.259 81.742 1.00 34.02 O HETATM 15 C3' LCC A 1 28.930 -3.321 79.210 1.00 41.42 C HETATM 16 C2' LCC A 1 28.036 -2.420 79.931 1.00 39.87 C HETATM 17 O2' LCC A 1 26.831 -3.262 80.137 1.00 39.13 O HETATM 18 O3' LCC A 1 28.279 -3.884 78.059 1.00 44.09 O HETATM 19 C6' LCC A 1 27.322 -4.637 80.360 1.00 40.12 C HETATM 20 O5' LCC A 2 27.442 -1.668 76.782 1.00 35.55 O HETATM 21 C5' LCC A 2 25.997 -1.814 76.730 1.00 33.22 C HETATM 22 C4' LCC A 2 25.473 -0.463 77.185 1.00 36.18 C HETATM 23 O4' LCC A 2 25.960 0.058 78.431 1.00 37.22 O HETATM 24 C1' LCC A 2 25.755 1.430 78.338 1.00 36.16 C HETATM 25 N1 LCC A 2 27.062 2.095 78.501 1.00 32.73 N HETATM 26 C6 LCC A 2 28.244 1.369 78.354 1.00 32.28 C HETATM 27 C5 LCC A 2 29.420 2.036 78.543 1.00 33.43 C HETATM 28 C5M LCC A 2 30.607 1.345 78.391 1.00 34.69 C HETATM 29 C4 LCC A 2 29.338 3.401 78.862 1.00 32.25 C HETATM 30 N4 LCC A 2 30.431 4.021 79.028 1.00 29.48 N HETATM 31 N3 LCC A 2 28.201 4.066 78.996 1.00 31.20 N HETATM 32 C2 LCC A 2 27.059 3.404 78.802 1.00 33.69 C HETATM 33 O2 LCC A 2 25.972 4.009 78.900 1.00 30.93 O HETATM 34 C3' LCC A 2 25.827 0.617 76.232 1.00 37.64 C HETATM 35 C2' LCC A 2 25.126 1.611 76.973 1.00 37.35 C HETATM 36 O2' LCC A 2 23.776 1.018 77.031 1.00 37.75 O HETATM 37 O3' LCC A 2 25.027 0.430 75.082 1.00 41.22 O HETATM 38 C6' LCC A 2 23.966 -0.427 77.249 1.00 34.67 C HETATM 39 P LCC A 2 28.462 -2.955 76.707 1.00 44.61 P HETATM 40 O1P LCC A 2 29.994 -2.319 76.584 1.00 38.23 O1- HETATM 41 O2P LCC A 2 27.784 -3.898 75.732 1.00 36.67 O HETATM 42 O5' LCC A 3 25.360 2.581 73.849 1.00 31.75 O HETATM 43 C5' LCC A 3 23.953 2.944 73.650 1.00 29.62 C HETATM 44 C4' LCC A 3 23.918 4.383 74.158 1.00 29.42 C HETATM 45 O4' LCC A 3 24.540 4.659 75.447 1.00 29.81 O HETATM 46 C1' LCC A 3 24.873 6.043 75.396 1.00 28.83 C HETATM 47 N1 LCC A 3 26.324 6.129 75.559 1.00 26.53 N HETATM 48 C6 LCC A 3 27.157 4.982 75.429 1.00 27.59 C HETATM 49 C5 LCC A 3 28.518 5.147 75.655 1.00 26.72 C HETATM 50 C5M LCC A 3 29.403 4.037 75.483 1.00 29.38 C HETATM 51 C4 LCC A 3 28.976 6.413 76.058 1.00 27.91 C HETATM 52 N4 LCC A 3 30.240 6.522 76.303 1.00 27.87 N HETATM 53 N3 LCC A 3 28.172 7.464 76.202 1.00 26.99 N HETATM 54 C2 LCC A 3 26.856 7.314 75.940 1.00 28.78 C HETATM 55 O2 LCC A 3 26.101 8.305 76.067 1.00 29.60 O HETATM 56 C3' LCC A 3 24.658 5.362 73.297 1.00 30.59 C HETATM 57 C2' LCC A 3 24.276 6.546 74.090 1.00 28.81 C HETATM 58 O2' LCC A 3 22.848 6.456 74.028 1.00 32.08 O HETATM 59 O3' LCC A 3 24.039 5.429 72.008 1.00 32.76 O HETATM 60 C6' LCC A 3 22.480 4.981 74.043 1.00 31.57 C HETATM 61 P LCC A 3 25.861 1.018 73.746 1.00 36.50 P HETATM 62 O1P LCC A 3 27.408 1.318 73.797 1.00 31.02 O1- HETATM 63 O2P LCC A 3 25.280 0.468 72.528 1.00 33.50 O HETATM 64 P LCG A 4 24.981 5.820 70.694 1.00 33.01 P HETATM 65 OP1 LCG A 4 24.105 5.586 69.527 1.00 34.38 O HETATM 66 O5' LCG A 4 25.229 7.452 70.826 1.00 31.08 O HETATM 67 C5' LCG A 4 24.130 8.396 70.809 1.00 34.51 C HETATM 68 C3' LCG A 4 25.872 10.156 70.307 1.00 32.62 C HETATM 69 C6' LCG A 4 23.977 11.095 71.335 1.00 50.17 C HETATM 70 N9 LCG A 4 27.448 9.904 72.806 1.00 30.09 N HETATM 71 C8 LCG A 4 27.730 8.592 72.811 1.00 31.03 C HETATM 72 C4 LCG A 4 28.535 10.614 73.133 1.00 28.65 C HETATM 73 N7 LCG A 4 29.005 8.465 73.163 1.00 30.67 N HETATM 74 C5 LCG A 4 29.526 9.690 73.349 1.00 29.80 C HETATM 75 C6 LCG A 4 30.748 10.076 73.703 1.00 27.90 C HETATM 76 C2' LCG A 4 26.307 11.356 71.126 1.00 31.77 C HETATM 77 O6 LCG A 4 31.704 9.299 73.960 1.00 30.40 O HETATM 78 C4' LCG A 4 24.771 9.705 71.248 1.00 34.47 C HETATM 79 C1' LCG A 4 26.314 10.671 72.529 1.00 31.82 C HETATM 80 C2 LCG A 4 29.953 12.368 73.540 1.00 28.96 C HETATM 81 N1 LCG A 4 30.963 11.397 73.784 1.00 28.50 N HETATM 82 O4' LCG A 4 25.276 9.631 72.532 1.00 34.95 O HETATM 83 OP2 LCG A 4 26.455 5.160 70.827 1.00 29.49 O1- HETATM 84 N2 LCG A 4 30.323 13.624 73.648 1.00 29.86 N HETATM 85 N3 LCG A 4 28.711 11.972 73.201 1.00 27.50 N HETATM 86 O2' LCG A 4 25.237 12.265 71.179 1.00 27.45 O HETATM 87 O3' LCG A 4 25.257 10.602 69.029 1.00 35.19 O