HEADER RNA 23-JUN-11 3SKT TITLE CRYSTAL STRUCTURE OF THE 2'- DEOXYGUANOSINE RIBOSWITCH BOUND TO 2'- TITLE 2 DEOXYGUANOSINE, MANGANESE SOAK COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (66-MER); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: DG RIBOSWITCH (66-MER) SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: IN VITRO TRANSCRIBED RNA KEYWDS THREE-WAY JUNCTION, RIBOSWITCH, 2'-DEOXY-GUANOSINE, RNA EXPDTA X-RAY DIFFRACTION AUTHOR O.PIKOVSKAYA,A.POLONSKAIA,D.J.PATEL,A.SERGANOV REVDAT 3 28-FEB-24 3SKT 1 REMARK LINK REVDAT 2 26-OCT-11 3SKT 1 JRNL REVDAT 1 17-AUG-11 3SKT 0 JRNL AUTH O.PIKOVSKAYA,A.POLONSKAIA,D.J.PATEL,A.SERGANOV JRNL TITL STRUCTURAL PRINCIPLES OF NUCLEOSIDE SELECTIVITY IN A JRNL TITL 2 2'-DEOXYGUANOSINE RIBOSWITCH. JRNL REF NAT.CHEM.BIOL. V. 7 748 2011 JRNL REFN ISSN 1552-4450 JRNL PMID 21841796 JRNL DOI 10.1038/NCHEMBIO.631 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 6532 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) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 317 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) : 3.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 398 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.54 REMARK 3 BIN R VALUE (WORKING SET) : 0.2220 REMARK 3 BIN FREE R VALUE SET COUNT : 22 REMARK 3 BIN FREE R VALUE : 0.3020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 2826 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 10 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.68000 REMARK 3 B22 (A**2) : -3.66000 REMARK 3 B33 (A**2) : 7.57000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -7.95000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.532 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.471 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 53.392 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.919 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3205 ; 0.006 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4974 ; 1.132 ; 3.000 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL 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): 662 ; 0.057 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1382 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1276 ; 0.186 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1941 ; 0.283 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 76 ; 0.171 ; 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): 32 ; 0.141 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.173 ; 0.200 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): 4471 ; 0.702 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4974 ; 1.186 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 23 A 88 REMARK 3 ORIGIN FOR THE GROUP (A): 22.0747 0.2093 14.2317 REMARK 3 T TENSOR REMARK 3 T11: -0.2042 T22: -0.0138 REMARK 3 T33: -0.3470 T12: -0.0245 REMARK 3 T13: 0.1606 T23: -0.0154 REMARK 3 L TENSOR REMARK 3 L11: 3.2365 L22: 4.0890 REMARK 3 L33: 3.1804 L12: -0.1418 REMARK 3 L13: 2.9663 L23: 0.2816 REMARK 3 S TENSOR REMARK 3 S11: -0.1767 S12: -0.0066 S13: -0.1851 REMARK 3 S21: -0.1816 S22: 0.0922 S23: -0.0996 REMARK 3 S31: -0.2527 S32: 0.4280 S33: 0.0845 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 23 B 88 REMARK 3 ORIGIN FOR THE GROUP (A): 23.0074 8.6402 43.2428 REMARK 3 T TENSOR REMARK 3 T11: -0.1687 T22: 0.0553 REMARK 3 T33: -0.1277 T12: 0.0150 REMARK 3 T13: 0.0301 T23: -0.1079 REMARK 3 L TENSOR REMARK 3 L11: 3.5654 L22: 4.6231 REMARK 3 L33: 1.9255 L12: -0.5890 REMARK 3 L13: 2.4069 L23: -1.4514 REMARK 3 S TENSOR REMARK 3 S11: -0.0638 S12: -0.4589 S13: -0.6214 REMARK 3 S21: 0.3612 S22: 0.1510 S23: -0.0835 REMARK 3 S31: -0.0921 S32: -0.5624 S33: -0.0873 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 : 0.00 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3SKT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1000066325. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-APR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5 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 : 6921 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.13600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.24000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLREP REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05 M NA-HEPES, PH 7.5, ~40 % (V/V) REMARK 280 PENTAERYTHRITOL PROPOXYLATE, 0.2 M KCL, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 48.51550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.31600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 48.51550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.31600 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 B 404 LIES ON A SPECIAL POSITION. 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 24 O3' - P - O5' ANGL. DEV. = -19.5 DEGREES REMARK 500 G A 24 O3' - P - OP2 ANGL. DEV. = 24.9 DEGREES REMARK 500 GTP B 23 C3' - O3' - P ANGL. DEV. = -10.6 DEGREES REMARK 500 G B 24 O3' - P - O5' ANGL. DEV. = 13.5 DEGREES REMARK 500 G B 24 O3' - P - OP2 ANGL. DEV. = 11.7 DEGREES REMARK 500 G B 24 O3' - P - OP1 ANGL. DEV. = -28.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GNG A 89 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 209 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 210 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GNG B 89 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 309 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3SKL RELATED DB: PDB REMARK 900 RELATED ID: 3SKR RELATED DB: PDB REMARK 900 RELATED ID: 3SKW RELATED DB: PDB REMARK 900 RELATED ID: 3SKZ RELATED DB: PDB DBREF 3SKT A 23 88 PDB 3SKT 3SKT 23 88 DBREF 3SKT B 23 88 PDB 3SKT 3SKT 23 88 SEQRES 1 A 66 GTP G C U U A U A C A G G G SEQRES 2 A 66 U A G C A U A A U G G G C SEQRES 3 A 66 U A C U G A C C C C G C C SEQRES 4 A 66 U U C A A A C C U A U U U SEQRES 5 A 66 G G A G A C U A U A A G U SEQRES 6 A 66 CCC SEQRES 1 B 66 GTP G C U U A U A C A G G G SEQRES 2 B 66 U A G C A U A A U G G G C SEQRES 3 B 66 U A C U G A C C C C G C C SEQRES 4 B 66 U U C A A A C C U A U U U SEQRES 5 B 66 G G A G A C U A U A A G U SEQRES 6 B 66 CCC MODRES 3SKT GTP A 23 G GUANOSINE-5'-TRIPHOSPHATE MODRES 3SKT CCC A 88 C MODRES 3SKT GTP B 23 G GUANOSINE-5'-TRIPHOSPHATE MODRES 3SKT CCC B 88 C HET GTP A 23 32 HET CCC A 88 23 HET GTP B 23 32 HET CCC B 88 23 HET GNG A 89 19 HET MN A 201 1 HET MN A 202 1 HET MN A 207 1 HET MN A 208 1 HET MN A 209 1 HET MN A 210 1 HET MG A 303 1 HET MG A 308 1 HET GNG B 89 19 HET MN B 203 1 HET MN B 204 1 HET MN B 205 1 HET MN B 206 1 HET MG B 301 1 HET MG B 302 1 HET MG B 304 1 HET MG B 305 1 HET MG B 306 1 HET MG B 307 1 HET MG B 309 1 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM CCC CYTIDINE-5'-PHOSPHATE-2',3'-CYCLIC PHOSPHATE HETNAM GNG 2'-DEOXY-GUANOSINE HETNAM MN MANGANESE (II) ION HETNAM MG MAGNESIUM ION FORMUL 1 GTP 2(C10 H16 N5 O14 P3) FORMUL 1 CCC 2(C9 H13 N3 O10 P2) FORMUL 3 GNG 2(C10 H13 N5 O4) FORMUL 4 MN 10(MN 2+) FORMUL 10 MG 9(MG 2+) FORMUL 24 HOH *10(H2 O) LINK O3' GTP A 23 P G A 24 1555 1555 1.59 LINK O3' U A 87 P CCC A 88 1555 1555 1.60 LINK O3' GTP B 23 P G B 24 1555 1555 1.59 LINK O3' U B 87 P CCC B 88 1555 1555 1.60 SITE 1 AC1 8 A A 30 C A 31 C A 56 C A 57 SITE 2 AC1 8 C A 58 G A 59 C A 80 U A 81 SITE 1 AC2 2 G A 75 MN A 208 SITE 1 AC3 1 G A 45 SITE 1 AC4 2 G A 34 U A 73 SITE 1 AC5 3 G A 75 G A 76 MN A 201 SITE 1 AC6 2 G A 33 C A 61 SITE 1 AC7 3 U A 41 U A 70 A A 71 SITE 1 AC8 1 A A 71 SITE 1 AC9 2 GTP A 23 U A 83 SITE 1 BC1 8 A B 30 C B 31 C B 56 C B 57 SITE 2 BC1 8 C B 58 G B 59 C B 80 U B 81 SITE 1 BC2 1 GTP B 23 SITE 1 BC3 1 A B 32 SITE 1 BC4 5 G B 33 U B 49 C B 60 C B 61 SITE 2 BC4 5 MG B 309 SITE 1 BC5 3 G B 34 G B 35 U B 73 SITE 1 BC6 1 G B 53 SITE 1 BC7 2 U A 87 GTP B 23 SITE 1 BC8 3 G B 33 G B 34 U B 73 SITE 1 BC9 1 G B 45 SITE 1 CC1 2 G B 33 G B 75 SITE 1 CC2 4 G B 33 C B 48 C B 61 MN B 205 CRYST1 97.031 34.632 111.598 90.00 92.81 90.00 C 1 2 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010306 0.000000 0.000505 0.00000 SCALE2 0.000000 0.028875 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008971 0.00000 HETATM 1 PG GTP A 23 45.339 -8.115 28.852 1.00 84.54 P ANISOU 1 PG GTP A 23 7364 12100 12658 1197 -2507 -865 P HETATM 2 O1G GTP A 23 46.325 -9.191 29.244 1.00 86.92 O ANISOU 2 O1G GTP A 23 7451 12228 13348 1435 -2925 -1021 O HETATM 3 O2G GTP A 23 45.717 -7.572 27.493 1.00 84.72 O ANISOU 3 O2G GTP A 23 6932 12455 12802 1111 -2086 -1008 O HETATM 4 O3G GTP A 23 45.385 -7.009 29.877 1.00 84.43 O ANISOU 4 O3G GTP A 23 7607 11998 12474 1029 -2707 -702 O HETATM 5 O3B GTP A 23 43.843 -8.727 28.783 1.00 80.66 O ANISOU 5 O3B GTP A 23 7308 11528 11812 1218 -2327 -722 O HETATM 6 PB GTP A 23 42.589 -7.913 28.154 1.00 76.25 P ANISOU 6 PB GTP A 23 6961 11140 10871 1031 -1863 -598 P HETATM 7 O1B GTP A 23 42.006 -8.691 26.995 1.00 74.53 O ANISOU 7 O1B GTP A 23 6643 11014 10661 1120 -1566 -692 O HETATM 8 O2B GTP A 23 42.961 -6.509 27.732 1.00 75.66 O ANISOU 8 O2B GTP A 23 6702 11270 10777 830 -1661 -608 O HETATM 9 O3A GTP A 23 41.532 -7.872 29.367 1.00 73.43 O ANISOU 9 O3A GTP A 23 7168 10594 10138 981 -2012 -349 O HETATM 10 PA GTP A 23 39.949 -7.765 29.103 1.00 69.41 P ANISOU 10 PA GTP A 23 6986 10139 9250 893 -1679 -196 P HETATM 11 O1A GTP A 23 39.364 -9.153 29.011 1.00 69.44 O ANISOU 11 O1A GTP A 23 7099 10007 9280 1017 -1730 -154 O HETATM 12 O2A GTP A 23 39.648 -6.975 27.854 1.00 68.58 O ANISOU 12 O2A GTP A 23 6691 10265 9102 780 -1260 -273 O HETATM 13 O5' GTP A 23 39.411 -6.985 30.408 1.00 68.51 O ANISOU 13 O5' GTP A 23 7298 9952 8783 797 -1815 -5 O HETATM 14 C5' GTP A 23 38.390 -7.513 31.221 1.00 67.87 C ANISOU 14 C5' GTP A 23 7613 9769 8406 807 -1863 189 C HETATM 15 C4' GTP A 23 38.522 -7.020 32.662 1.00 69.95 C ANISOU 15 C4' GTP A 23 8203 9938 8436 789 -2156 304 C HETATM 16 O4' GTP A 23 39.855 -7.081 33.123 1.00 73.02 O ANISOU 16 O4' GTP A 23 8443 10202 9098 856 -2542 211 O HETATM 17 C3' GTP A 23 38.128 -5.567 32.852 1.00 68.83 C ANISOU 17 C3' GTP A 23 8202 9924 8028 685 -2003 305 C HETATM 18 O3' GTP A 23 36.743 -5.417 33.069 1.00 68.64 O ANISOU 18 O3' GTP A 23 8473 9984 7622 645 -1753 437 O HETATM 19 C2' GTP A 23 38.898 -5.096 34.076 1.00 71.44 C ANISOU 19 C2' GTP A 23 8709 10131 8302 710 -2407 315 C HETATM 20 O2' GTP A 23 38.242 -5.520 35.251 1.00 71.27 O ANISOU 20 O2' GTP A 23 9114 10038 7927 748 -2542 489 O HETATM 21 C1' GTP A 23 40.172 -5.918 33.880 1.00 73.93 C ANISOU 21 C1' GTP A 23 8707 10320 9064 795 -2694 214 C HETATM 22 N9 GTP A 23 41.190 -5.091 33.180 1.00 74.53 N ANISOU 22 N9 GTP A 23 8386 10475 9457 737 -2685 43 N HETATM 23 C8 GTP A 23 41.774 -5.374 31.969 1.00 74.61 C ANISOU 23 C8 GTP A 23 7933 10594 9823 742 -2509 -102 C HETATM 24 N7 GTP A 23 42.640 -4.384 31.650 1.00 75.33 N ANISOU 24 N7 GTP A 23 7745 10766 10112 639 -2534 -196 N HETATM 25 C5 GTP A 23 42.619 -3.462 32.637 1.00 75.92 C ANISOU 25 C5 GTP A 23 8112 10748 9985 578 -2762 -123 C HETATM 26 C6 GTP A 23 43.306 -2.263 32.814 1.00 77.26 C ANISOU 26 C6 GTP A 23 8193 10911 10250 456 -2926 -158 C HETATM 27 O6 GTP A 23 44.109 -1.875 31.964 1.00 78.24 O ANISOU 27 O6 GTP A 23 7885 11150 10694 353 -2838 -244 O HETATM 28 N1 GTP A 23 43.083 -1.506 33.947 1.00 77.92 N ANISOU 28 N1 GTP A 23 8680 10864 10061 449 -3194 -93 N HETATM 29 C2 GTP A 23 42.181 -1.944 34.898 1.00 77.45 C ANISOU 29 C2 GTP A 23 9094 10727 9607 557 -3253 10 C HETATM 30 N2 GTP A 23 41.955 -1.214 35.986 1.00 78.35 N ANISOU 30 N2 GTP A 23 9606 10746 9416 575 -3493 47 N HETATM 31 N3 GTP A 23 41.501 -3.135 34.714 1.00 76.41 N ANISOU 31 N3 GTP A 23 9025 10622 9385 642 -3065 78 N HETATM 32 C4 GTP A 23 41.714 -3.889 33.604 1.00 75.36 C ANISOU 32 C4 GTP A 23 8513 10573 9549 655 -2847 10 C