HEADER RNA 23-APR-07 2PN4 TITLE CRYSTAL STRUCTURE OF HEPATITIS C VIRUS IRES SUBDOMAIN IIA COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-R(*CP*GP*GP*AP*GP*GP*AP*AP*CP*UP*AP*CP*UP*GP*UP*CP*UP*UP COMPND 3 *CP*AP*CP*GP*CP*C)-3'; COMPND 4 CHAIN: A, C; COMPND 5 FRAGMENT: HCV IRES SUBDOMAIN IIA (RESIDUE 47-70); COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 5'-R(*GP*CP*GP*(5BU) COMPND 10 P*GP*UP*CP*GP*UP*GP*CP*AP*GP*CP*CP*(5BU)P*CP*CP*GP*G)-3'; COMPND 11 CHAIN: B, D; COMPND 12 FRAGMENT: HCV IRES SUBDOMAIN IIA (RESIDUE 98-117); COMPND 13 ENGINEERED: YES; COMPND 14 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SEQUENCE OF RNA NATURALLY EXISTS IN HEPATITIS C SOURCE 4 VIRUS; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 OTHER_DETAILS: THIS SEQUENCE OF RNA NATURALLY EXISTS IN HEPATITIS C SOURCE 8 VIRUS KEYWDS HCV, IRES, SUBDOAMIN IIA, RNA, STRONTIUM, HEPATITIS EXPDTA X-RAY DIFFRACTION AUTHOR Q.ZHAO,Q.HAN,C.R.KISSINGER,P.A.THOMPSON REVDAT 4 30-AUG-23 2PN4 1 REMARK LINK REVDAT 3 13-JUL-11 2PN4 1 VERSN REVDAT 2 24-FEB-09 2PN4 1 VERSN REVDAT 1 01-APR-08 2PN4 0 JRNL AUTH Q.ZHAO,Q.HAN,C.R.KISSINGER,T.HERMANN,P.A.THOMPSON JRNL TITL STRUCTURE OF HEPATITIS C VIRUS IRES SUBDOMAIN IIA. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 64 436 2008 JRNL REFN ISSN 0907-4449 JRNL PMID 18391410 JRNL DOI 10.1107/S0907444908002011 REMARK 2 REMARK 2 RESOLUTION. 2.32 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) : 2.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 59.98 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 3 NUMBER OF REFLECTIONS : 11590 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) : 0.264 REMARK 3 R VALUE (WORKING SET) : 0.261 REMARK 3 FREE R VALUE : 0.320 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 598 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) : 2.32 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.38 REMARK 3 REFLECTION IN BIN (WORKING SET) : 752 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.03 REMARK 3 BIN R VALUE (WORKING SET) : 0.3010 REMARK 3 BIN FREE R VALUE SET COUNT : 36 REMARK 3 BIN FREE R VALUE : 0.4300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 0 REMARK 3 NUCLEIC ACID ATOMS : 1860 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 67 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 59.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.27 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.24000 REMARK 3 B22 (A**2) : -0.38000 REMARK 3 B33 (A**2) : 2.62000 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): 0.445 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.314 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.220 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.579 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.909 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.872 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2072 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3224 ; 1.835 ; 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): 436 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 904 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 732 ; 0.165 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1250 ; 0.279 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 94 ; 0.162 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 7 ; 0.222 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 46 ; 0.164 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.317 ; 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): 2562 ; 1.409 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3224 ; 1.940 ; 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 : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 47 A 70 REMARK 3 RESIDUE RANGE : B 98 B 117 REMARK 3 ORIGIN FOR THE GROUP (A): -9.5438 -7.1940 14.8938 REMARK 3 T TENSOR REMARK 3 T11: -0.0837 T22: -0.0901 REMARK 3 T33: -0.0066 T12: -0.0447 REMARK 3 T13: 0.0110 T23: -0.0115 REMARK 3 L TENSOR REMARK 3 L11: 2.8545 L22: 0.4417 REMARK 3 L33: 2.8951 L12: 0.1486 REMARK 3 L13: 0.4450 L23: 0.2893 REMARK 3 S TENSOR REMARK 3 S11: 0.0175 S12: -0.2278 S13: 0.2657 REMARK 3 S21: -0.1410 S22: -0.1201 S23: -0.2420 REMARK 3 S31: -0.2087 S32: 0.1855 S33: 0.1026 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 47 C 70 REMARK 3 RESIDUE RANGE : D 98 D 117 REMARK 3 ORIGIN FOR THE GROUP (A): -29.1709 -27.0239 15.1391 REMARK 3 T TENSOR REMARK 3 T11: -0.0229 T22: -0.1024 REMARK 3 T33: -0.0170 T12: -0.0504 REMARK 3 T13: -0.0022 T23: 0.0186 REMARK 3 L TENSOR REMARK 3 L11: 0.2019 L22: 2.8179 REMARK 3 L33: 2.0653 L12: -0.1002 REMARK 3 L13: 0.0957 L23: -0.0331 REMARK 3 S TENSOR REMARK 3 S11: -0.1730 S12: -0.1624 S13: -0.1329 REMARK 3 S21: -0.2827 S22: 0.0546 S23: 0.2617 REMARK 3 S31: 0.2838 S32: -0.1908 S33: 0.1184 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: SPARE MATRIX LEAST SQUARES PROCEDURE REMARK 4 REMARK 4 2PN4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-APR-07. REMARK 100 THE DEPOSITION ID IS D_1000042561. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-MAR-06 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 8-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97949 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : MIRRORS 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 : 12228 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.320 REMARK 200 RESOLUTION RANGE LOW (A) : 59.980 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.10800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : 0.71400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 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: PDB ENTRY 2PN3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% MPD, 80MM SRCL2, 25MM NACL, 50MM REMARK 280 CACODYLATE EQUILIBRATED WITH 60%MPD, PH 6.2, EVAPORATION, REMARK 280 TEMPERATURE 290.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 24.14300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.99950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.36500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.99950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.14300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.36500 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS GENERATED BY APPLYING THE REMARK 300 OPERATION X, Y, Z TO CHAINS A, B OR BY APPLYING THE OPERATION X, Y, REMARK 300 Z TO CHAINS C, D. 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: 4600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -144.5 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: 4600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -144.5 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 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 C 1023 O HOH C 1024 1.96 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 52 C4' - C3' - C2' ANGL. DEV. = -8.0 DEGREES REMARK 500 C A 55 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 C A 55 C3' - O3' - P ANGL. DEV. = 7.9 DEGREES REMARK 500 A A 57 C2 - N3 - C4 ANGL. DEV. = 3.3 DEGREES REMARK 500 U A 59 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 U A 63 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 C A 67 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 G B 105 C1' - O4' - C4' ANGL. DEV. = -8.0 DEGREES REMARK 500 G B 105 O4' - C1' - N9 ANGL. DEV. = 7.5 DEGREES REMARK 500 C B 112 C3' - O3' - P ANGL. DEV. = 7.3 DEGREES REMARK 500 U C 56 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 A C 57 N1 - C2 - N3 ANGL. DEV. = -3.1 DEGREES REMARK 500 C D 99 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 G D 100 C5' - C4' - O4' ANGL. DEV. = 6.0 DEGREES REMARK 500 G D 105 C1' - O4' - C4' ANGL. DEV. = -4.4 DEGREES REMARK 500 A D 109 O4' - C1' - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 A D 109 N1 - C2 - N3 ANGL. DEV. = -3.1 DEGREES REMARK 500 C D 112 C3' - O3' - P ANGL. DEV. = 8.6 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 SR A1001 SR REMARK 620 N RES CSSEQI ATOM REMARK 620 1 C A 55 O2 REMARK 620 2 HOH A1046 O 67.0 REMARK 620 3 HOH B 126 O 86.8 137.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SR A1002 SR REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 60 O6 REMARK 620 2 HOH A1038 O 70.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SR A1005 SR REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1032 O REMARK 620 2 HOH A1045 O 88.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SR C1003 SR REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G C 60 O6 REMARK 620 2 HOH C1032 O 69.5 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR C 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR C 1022 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 1027 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR C 1008 DBREF 2PN4 A 47 70 PDB 2PN4 2PN4 47 70 DBREF 2PN4 C 47 70 PDB 2PN4 2PN4 47 70 DBREF 2PN4 B 98 117 PDB 2PN4 2PN4 98 117 DBREF 2PN4 D 98 117 PDB 2PN4 2PN4 98 117 SEQRES 1 A 24 C G G A G G A A C U A C U SEQRES 2 A 24 G U C U U C A C G C C SEQRES 1 B 20 G C G 5BU G U C G U G C A G SEQRES 2 B 20 C C 5BU C C G G SEQRES 1 C 24 C G G A G G A A C U A C U SEQRES 2 C 24 G U C U U C A C G C C SEQRES 1 D 20 G C G 5BU G U C G U G C A G SEQRES 2 D 20 C C 5BU C C G G MODRES 2PN4 5BU B 101 U 5-BROMO-URIDINE-5'-MONOPHOSPHATE MODRES 2PN4 5BU B 113 U 5-BROMO-URIDINE-5'-MONOPHOSPHATE MODRES 2PN4 5BU D 101 U 5-BROMO-URIDINE-5'-MONOPHOSPHATE MODRES 2PN4 5BU D 113 U 5-BROMO-URIDINE-5'-MONOPHOSPHATE HET 5BU B 101 21 HET 5BU B 113 21 HET 5BU D 101 21 HET 5BU D 113 21 HET SR A1001 1 HET SR A1002 1 HET SR A1006 1 HET SR A1027 1 HET SR A1005 1 HET SR C1003 1 HET SR C1004 1 HET SR C1009 1 HET SR C1022 1 HET SR C1008 1 HETNAM 5BU 5-BROMO-URIDINE-5'-MONOPHOSPHATE HETNAM SR STRONTIUM ION FORMUL 2 5BU 4(C9 H12 BR N2 O9 P) FORMUL 5 SR 10(SR 2+) FORMUL 15 HOH *67(H2 O) LINK O3' G B 100 P 5BU B 101 1555 1555 1.60 LINK O3' 5BU B 101 P G B 102 1555 1555 1.61 LINK O3' C B 112 P 5BU B 113 1555 1555 1.60 LINK O3' 5BU B 113 P C B 114 1555 1555 1.60 LINK O3' G D 100 P 5BU D 101 1555 1555 1.59 LINK O3' 5BU D 101 P G D 102 1555 1555 1.62 LINK O3' C D 112 P 5BU D 113 1555 1555 1.60 LINK O3' 5BU D 113 P C D 114 1555 1555 1.59 LINK OP1 A A 54 SR SR A1027 1555 1555 2.21 LINK O2 C A 55 SR SR A1001 1555 1555 2.56 LINK O6 G A 60 SR SR A1002 1555 1555 2.76 LINK SR SR A1001 O HOH A1046 1555 1555 2.32 LINK SR SR A1001 O HOH B 126 1555 1555 2.52 LINK SR SR A1002 O HOH A1038 1555 1555 2.70 LINK SR SR A1005 O HOH A1032 1555 1555 2.63 LINK SR SR A1005 O HOH A1045 1555 1555 2.54 LINK OP1 A C 54 SR SR C1022 1555 1555 2.28 LINK O2 C C 55 SR SR C1004 1555 1555 2.55 LINK O6 G C 60 SR SR C1003 1555 1555 2.73 LINK SR SR C1003 O HOH C1032 1555 1555 2.71 LINK SR SR C1008 O HOH C1034 1555 1555 2.67 LINK SR SR C1009 O HOH C1033 1555 1555 2.69 SITE 1 AC1 2 HOH A1046 HOH B 126 SITE 1 AC2 1 HOH A1038 SITE 1 AC3 1 HOH C1032 SITE 1 AC4 1 HOH A1035 SITE 1 AC5 1 HOH A1036 SITE 1 AC6 2 HOH A1032 HOH A1045 SITE 1 AC7 2 HOH C1028 HOH C1034 CRYST1 48.286 48.730 119.999 90.00 90.00 90.00 P 21 21 21 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 0.020710 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020521 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008333 0.00000