HEADER RNA 26-JUL-16 5L00 TITLE SELF-COMPLIMENTARY RNA 15MER BINDING WITH GMP MONOMERS 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, C, D; 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 EXPDTA X-RAY DIFFRACTION AUTHOR W.ZHANG,C.P.TAM,J.W.SZOSTAK REVDAT 3 04-OCT-23 5L00 1 LINK REVDAT 2 18-JAN-17 5L00 1 JRNL REVDAT 1 07-DEC-16 5L00 0 JRNL AUTH W.ZHANG,C.P.TAM,J.WANG,J.W.SZOSTAK JRNL TITL UNUSUAL BASE-PAIRING INTERACTIONS IN MONOMER-TEMPLATE JRNL TITL 2 COMPLEXES. JRNL REF ACS CENT SCI V. 2 916 2016 JRNL REFN ESSN 2374-7943 JRNL PMID 28058281 JRNL DOI 10.1021/ACSCENTSCI.6B00278 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.7 REMARK 3 NUMBER OF REFLECTIONS : 45234 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2387 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) : 1.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2258 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 62.48 REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE SET COUNT : 100 REMARK 3 BIN FREE R VALUE : 0.3760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 1288 REMARK 3 HETEROGEN ATOMS : 100 REMARK 3 SOLVENT ATOMS : 176 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.055 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.058 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.033 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.755 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1536 ; 0.030 ; 0.015 REMARK 3 BOND LENGTHS OTHERS (A): 680 ; 0.082 ; 0.023 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2380 ; 2.985 ; 1.721 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1640 ; 3.905 ; 3.187 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): 268 ; 0.754 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 776 ; 0.031 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 304 ; 0.005 ; 0.021 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): 1536 ; 1.612 ; 1.682 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1535 ; 1.613 ; 1.682 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2381 ; 2.190 ; 2.537 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2381 ; 3.771 ;17.325 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2370 ; 3.770 ;17.281 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 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 5L00 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1000222984. 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) : 90 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) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51401 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 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 (%) : 92.7 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : 0.04500 REMARK 200 FOR THE DATA SET : 34.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.29 REMARK 200 COMPLETENESS FOR SHELL (%) : 64.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : 0.27700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.460 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: 4NFO REMARK 200 REMARK 200 REMARK: DIAMOND SHAPE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 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, 0.012 M SODIUM CHLORIDE, 0.080 M REMARK 280 POTASSIUM CHLORIDE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 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 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 11.0 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: 2800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 11.0 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 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 103 LIES ON A SPECIAL POSITION. REMARK 375 MG MG B 101 LIES ON A SPECIAL POSITION. REMARK 375 MG MG C 101 LIES ON A SPECIAL POSITION. REMARK 375 MG MG D 101 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 223 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 236 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 245 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 246 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 213 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 215 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 243 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 222 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 228 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 240 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 243 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 204 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 211 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 241 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 LCG A 4 O3' A A 5 P 0.076 REMARK 500 A A 5 P A A 5 OP2 -0.111 REMARK 500 U A 8 P U A 8 OP2 -0.122 REMARK 500 U A 12 P U A 12 OP2 -0.123 REMARK 500 U A 12 O3' C A 13 P -0.099 REMARK 500 G A 15 O5' G A 15 C5' -0.122 REMARK 500 LCC B 1 O3' LCC B 2 P 0.092 REMARK 500 U B 8 O3' A B 9 P -0.073 REMARK 500 G B 14 P G B 14 OP2 -0.116 REMARK 500 LCC C 1 O3' LCC C 2 P 0.080 REMARK 500 LCG C 4 O3' A C 5 P 0.092 REMARK 500 U C 8 P U C 8 OP2 -0.121 REMARK 500 U C 12 P U C 12 OP2 -0.110 REMARK 500 U C 12 O3' C C 13 P -0.102 REMARK 500 G C 15 O5' G C 15 C5' -0.131 REMARK 500 LCC D 1 O3' LCC D 2 P 0.074 REMARK 500 U D 8 O3' A D 9 P -0.076 REMARK 500 G D 14 P G D 14 OP2 -0.110 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 G A 15 O5' - C5' - C4' ANGL. DEV. = -5.3 DEGREES REMARK 500 G A 15 C5' - C4' - C3' ANGL. DEV. = -12.1 DEGREES REMARK 500 G B 11 O5' - P - OP2 ANGL. DEV. = -12.3 DEGREES REMARK 500 G B 11 C5' - C4' - C3' ANGL. DEV. = 10.6 DEGREES REMARK 500 G C 15 C5' - C4' - C3' ANGL. DEV. = -10.8 DEGREES REMARK 500 G D 11 O5' - P - OP2 ANGL. DEV. = -14.7 DEGREES REMARK 500 G D 11 C5' - C4' - C3' ANGL. DEV. = 10.8 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 U A 7 0.07 SIDE CHAIN REMARK 500 U C 7 0.08 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 MG A 103 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 15 O3' REMARK 620 2 G A 15 O2' 70.7 REMARK 620 3 G A 15 O3' 0.0 70.7 REMARK 620 4 G A 15 O2' 70.7 0.0 70.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 15 O3' REMARK 620 2 G B 15 O2' 61.0 REMARK 620 3 G B 15 O3' 0.0 61.0 REMARK 620 4 G B 15 O2' 61.0 0.0 61.0 REMARK 620 5 HOH B 243 O 85.6 137.3 85.6 137.3 REMARK 620 6 HOH B 243 O 86.6 137.7 86.6 137.7 1.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G C 15 O3' REMARK 620 2 G C 15 O2' 70.6 REMARK 620 3 G C 15 O3' 0.0 70.6 REMARK 620 4 G C 15 O2' 70.6 0.0 70.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G D 15 O3' REMARK 620 2 G D 15 O2' 60.7 REMARK 620 3 G D 15 O3' 0.0 60.7 REMARK 620 4 G D 15 O2' 60.7 0.0 60.7 REMARK 620 5 HOH D 241 O 85.5 137.3 85.5 137.3 REMARK 620 6 HOH D 241 O 85.6 137.3 85.6 137.3 0.2 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue G A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue G 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 B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue G C 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue G C 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG D 101 DBREF 5L00 A 1 15 PDB 5L00 5L00 1 15 DBREF 5L00 B 1 15 PDB 5L00 5L00 1 15 DBREF 5L00 C 1 15 PDB 5L00 5L00 1 15 DBREF 5L00 D 1 15 PDB 5L00 5L00 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 SEQRES 1 C 15 LCC LCC LCC LCG A C U U A A G U C SEQRES 2 C 15 G G SEQRES 1 D 15 LCC LCC LCC LCG A C U U A A G U C SEQRES 2 D 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 LCC C 1 19 HET LCC C 2 22 HET LCC C 3 22 HET LCG C 4 24 HET LCC D 1 19 HET LCC D 2 22 HET LCC D 3 22 HET LCG D 4 24 HET G A 101 24 HET G A 102 24 HET MG A 103 1 HET MG B 101 1 HET MG C 101 1 HET G C 102 24 HET G C 103 24 HET MG D 101 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 G GUANOSINE-5'-MONOPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 1 LCC 12(C11 H16 N3 O8 P) FORMUL 1 LCG 4(C11 H14 N5 O8 P) FORMUL 5 G 4(C10 H14 N5 O8 P) FORMUL 7 MG 4(MG 2+) FORMUL 13 HOH *176(H2 O) LINK O3' LCC A 1 P LCC A 2 1555 1555 1.60 LINK O3' LCC A 2 P LCC A 3 1555 1555 1.58 LINK O3' LCC A 3 P LCG A 4 1555 1555 1.64 LINK O3' LCG A 4 P A A 5 1555 1555 1.68 LINK O3' LCC B 1 P LCC B 2 1555 1555 1.70 LINK O3' LCC B 2 P LCC B 3 1555 1555 1.63 LINK O3' LCC B 3 P LCG B 4 1555 1555 1.63 LINK O3' LCG B 4 P A B 5 1555 1555 1.57 LINK O3' LCC C 1 P LCC C 2 1555 1555 1.69 LINK O3' LCC C 2 P LCC C 3 1555 1555 1.58 LINK O3' LCC C 3 P LCG C 4 1555 1555 1.62 LINK O3' LCG C 4 P A C 5 1555 1555 1.70 LINK O3' LCC D 1 P LCC D 2 1555 1555 1.68 LINK O3' LCC D 2 P LCC D 3 1555 1555 1.61 LINK O3' LCC D 3 P LCG D 4 1555 1555 1.62 LINK O3' LCG D 4 P A D 5 1555 1555 1.57 LINK O3' G A 15 MG MG A 103 1555 1555 2.31 LINK O2' G A 15 MG MG A 103 1555 1555 2.30 LINK O3' G A 15 MG MG A 103 1555 2555 2.34 LINK O2' G A 15 MG MG A 103 1555 2555 2.31 LINK O3' G B 15 MG MG B 101 1555 1555 2.46 LINK O2' G B 15 MG MG B 101 1555 1555 2.92 LINK O3' G B 15 MG MG B 101 1555 3555 2.48 LINK O2' G B 15 MG MG B 101 1555 3555 2.92 LINK MG MG B 101 O HOH B 243 1555 1555 2.93 LINK MG MG B 101 O HOH B 243 1555 3555 2.93 LINK O3' G C 15 MG MG C 101 1555 1555 2.33 LINK O2' G C 15 MG MG C 101 1555 1555 2.31 LINK O3' G C 15 MG MG C 101 1555 3565 2.35 LINK O2' G C 15 MG MG C 101 1555 3565 2.31 LINK O3' G D 15 MG MG D 101 1555 1555 2.44 LINK O2' G D 15 MG MG D 101 1555 1555 2.87 LINK O3' G D 15 MG MG D 101 1555 3565 2.46 LINK O2' G D 15 MG MG D 101 1555 2665 2.88 LINK MG MG D 101 O HOH D 241 1555 1555 2.93 LINK MG MG D 101 O HOH D 241 1555 2665 2.93 SITE 1 AC1 6 G A 15 HOH A 201 LCC B 1 LCC B 2 SITE 2 AC1 6 HOH B 224 LCC D 1 SITE 1 AC2 8 LCC A 1 LCC A 2 HOH A 208 HOH A 221 SITE 2 AC2 8 HOH A 237 G B 15 HOH B 225 LCC C 1 SITE 1 AC3 1 G A 15 SITE 1 AC4 2 G B 15 HOH B 243 SITE 1 AC5 1 G C 15 SITE 1 AC6 6 LCC B 1 G C 15 HOH C 219 LCC D 1 SITE 2 AC6 6 LCC D 2 HOH D 223 SITE 1 AC7 7 LCC A 1 LCC C 1 LCC C 2 HOH C 223 SITE 2 AC7 7 HOH C 235 G D 15 HOH D 225 SITE 1 AC8 2 G D 15 HOH D 241 CRYST1 43.846 43.846 86.450 90.00 90.00 120.00 P 3 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 0.022807 0.013168 0.000000 0.00000 SCALE2 0.000000 0.026335 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011567 0.00000 HETATM 1 O5' LCC A 1 18.333 -5.288 84.787 1.00 27.03 O HETATM 2 C5' LCC A 1 18.234 -6.698 84.852 1.00 25.82 C HETATM 3 C4' LCC A 1 16.712 -6.927 84.891 1.00 23.51 C HETATM 4 O4' LCC A 1 16.135 -6.129 85.918 1.00 25.66 O HETATM 5 C1' LCC A 1 14.633 -6.234 85.656 1.00 25.45 C HETATM 6 N1 LCC A 1 14.050 -4.938 85.716 1.00 21.73 N HETATM 7 C6 LCC A 1 14.800 -3.705 85.748 1.00 18.78 C HETATM 8 C5 LCC A 1 14.235 -2.490 85.839 1.00 21.25 C HETATM 9 C5M LCC A 1 15.047 -1.352 85.878 1.00 23.50 C HETATM 10 C4 LCC A 1 12.842 -2.452 86.015 1.00 20.15 C HETATM 11 N4 LCC A 1 12.256 -1.281 86.165 1.00 23.26 N HETATM 12 N3 LCC A 1 12.165 -3.623 85.994 1.00 19.22 N HETATM 13 C2 LCC A 1 12.664 -4.841 85.837 1.00 18.63 C HETATM 14 O2 LCC A 1 12.005 -5.896 85.826 1.00 20.92 O HETATM 15 C3' LCC A 1 15.828 -6.319 83.754 1.00 21.97 C HETATM 16 C2' LCC A 1 14.666 -6.890 84.373 1.00 24.21 C HETATM 17 O2' LCC A 1 14.978 -8.352 84.489 1.00 25.16 O HETATM 18 O3' LCC A 1 16.147 -7.041 82.579 1.00 23.13 O HETATM 19 C6' LCC A 1 16.430 -8.374 84.965 1.00 25.33 C HETATM 20 O5' LCC A 2 14.276 -6.435 80.873 1.00 18.84 O HETATM 21 C5' LCC A 2 13.572 -7.655 80.892 1.00 17.62 C HETATM 22 C4' LCC A 2 12.143 -7.174 81.098 1.00 17.58 C HETATM 23 O4' LCC A 2 12.037 -6.477 82.355 1.00 19.64 O HETATM 24 C1' LCC A 2 10.794 -5.787 82.357 1.00 16.21 C HETATM 25 N1 LCC A 2 11.128 -4.362 82.539 1.00 18.22 N HETATM 26 C6 LCC A 2 12.392 -3.843 82.388 1.00 15.99 C HETATM 27 C5 LCC A 2 12.648 -2.532 82.543 1.00 15.59 C HETATM 28 C5M LCC A 2 13.979 -2.004 82.356 1.00 18.80 C HETATM 29 C4 LCC A 2 11.572 -1.672 82.840 1.00 15.58 C HETATM 30 N4 LCC A 2 11.757 -0.380 82.969 1.00 16.83 N HETATM 31 N3 LCC A 2 10.319 -2.148 82.971 1.00 16.53 N HETATM 32 C2 LCC A 2 10.090 -3.474 82.805 1.00 15.50 C HETATM 33 O2 LCC A 2 8.920 -3.926 82.914 1.00 17.33 O HETATM 34 C3' LCC A 2 11.579 -6.123 80.176 1.00 18.25 C HETATM 35 C2' LCC A 2 10.281 -6.140 80.950 1.00 17.41 C HETATM 36 O2' LCC A 2 9.863 -7.494 81.017 1.00 18.65 O HETATM 37 O3' LCC A 2 11.406 -6.685 78.825 1.00 19.28 O HETATM 38 C6' LCC A 2 11.122 -8.350 81.084 1.00 17.13 C HETATM 39 P LCC A 2 15.918 -6.368 81.141 1.00 22.77 P HETATM 40 O1P LCC A 2 16.254 -4.924 81.014 1.00 24.53 O HETATM 41 O2P LCC A 2 16.482 -7.322 80.096 1.00 24.91 O HETATM 42 O5' LCC A 3 9.560 -5.278 77.859 1.00 16.76 O HETATM 43 C5' LCC A 3 8.474 -6.193 77.892 1.00 16.18 C HETATM 44 C4' LCC A 3 7.256 -5.321 78.252 1.00 14.84 C HETATM 45 O4' LCC A 3 7.468 -4.690 79.525 1.00 15.90 O HETATM 46 C1' LCC A 3 6.580 -3.575 79.473 1.00 15.34 C HETATM 47 N1 LCC A 3 7.405 -2.331 79.673 1.00 15.01 N HETATM 48 C6 LCC A 3 8.818 -2.341 79.428 1.00 17.05 C HETATM 49 C5 LCC A 3 9.606 -1.254 79.614 1.00 14.79 C HETATM 50 C5M LCC A 3 11.063 -1.335 79.399 1.00 15.54 C HETATM 51 C4 LCC A 3 8.927 -0.053 80.028 1.00 16.66 C HETATM 52 N4 LCC A 3 9.629 1.057 80.253 1.00 16.56 N HETATM 53 N3 LCC A 3 7.619 -0.011 80.152 1.00 15.18 N HETATM 54 C2 LCC A 3 6.869 -1.103 79.977 1.00 15.06 C HETATM 55 O2 LCC A 3 5.617 -1.068 80.027 1.00 16.07 O HETATM 56 C3' LCC A 3 6.958 -4.198 77.366 1.00 15.69 C HETATM 57 C2' LCC A 3 5.873 -3.749 78.185 1.00 14.82 C HETATM 58 O2' LCC A 3 5.002 -4.922 78.370 1.00 16.20 O HETATM 59 O3' LCC A 3 6.604 -4.670 76.097 1.00 17.08 O HETATM 60 C6' LCC A 3 6.017 -6.066 78.295 1.00 16.35 C HETATM 61 P LCC A 3 11.113 -5.760 77.584 1.00 17.57 P HETATM 62 O1P LCC A 3 11.917 -4.562 77.614 1.00 18.12 O HETATM 63 O2P LCC A 3 11.175 -6.678 76.414 1.00 19.65 O HETATM 64 P LCG A 4 6.885 -3.865 74.697 1.00 16.78 P HETATM 65 OP1 LCG A 4 6.452 -4.889 73.657 1.00 17.81 O HETATM 66 O5' LCG A 4 5.943 -2.634 74.768 1.00 16.15 O HETATM 67 C5' LCG A 4 4.517 -2.835 74.837 1.00 16.53 C HETATM 68 C3' LCG A 4 4.432 -0.323 74.282 1.00 15.98 C HETATM 69 C6' LCG A 4 2.462 -1.335 75.141 1.00 16.97 C HETATM 70 N9 LCG A 4 5.515 1.037 76.694 1.00 15.57 N HETATM 71 C8 LCG A 4 6.712 0.414 76.620 1.00 15.69 C HETATM 72 C4 LCG A 4 5.763 2.335 77.101 1.00 14.90 C HETATM 73 N7 LCG A 4 7.713 1.181 76.992 1.00 16.16 N HETATM 74 C5 LCG A 4 7.102 2.427 77.319 1.00 14.49 C HETATM 75 C6 LCG A 4 7.598 3.654 77.750 1.00 14.16 C HETATM 76 C2' LCG A 4 3.618 0.634 75.072 1.00 17.76 C HETATM 77 O6 LCG A 4 8.793 3.918 77.990 1.00 16.92 O HETATM 78 C4' LCG A 4 3.926 -1.430 75.136 1.00 17.12 C HETATM 79 C1' LCG A 4 4.219 0.453 76.409 1.00 17.41 C HETATM 80 C2 LCG A 4 5.324 4.483 77.664 1.00 13.41 C HETATM 81 N1 LCG A 4 6.654 4.620 77.920 1.00 14.47 N HETATM 82 O4' LCG A 4 4.351 -0.981 76.463 1.00 16.97 O HETATM 83 OP2 LCG A 4 8.229 -3.327 74.706 1.00 16.58 O HETATM 84 N2 LCG A 4 4.535 5.510 77.849 1.00 14.68 N HETATM 85 N3 LCG A 4 4.804 3.337 77.264 1.00 14.88 N HETATM 86 O2' LCG A 4 2.241 0.173 75.096 1.00 18.04 O HETATM 87 O3' LCG A 4 3.900 -0.513 72.976 1.00 18.12 O