HEADER VIRAL PROTEIN 17-OCT-06 2J7U TITLE DENGUE VIRUS NS5 RNA DEPENDENT RNA POLYMERASE DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA DEPENDENT RNA POLYMERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RNA DEPENDENT RNA POLYMERASE DOMAIN, RESIDUES 2763-3390; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DENGUE VIRUS; SOURCE 3 ORGANISM_TAXID: 12637; SOURCE 4 STRAIN: 3 SINGAPORE STRAIN; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: CODONPLUS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET15B KEYWDS NUCLEOSIDE BINDING SITE, FLAVIVIRUS, HIGH-THROUGHPUT ASSAY, VIRAL KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.L.YAP,T.XU,Y.L.CHEN,H.MALET,M.P.EGLOFF,B.CANARD,S.G.VASUDEVAN, AUTHOR 2 J.LESCAR REVDAT 7 13-DEC-23 2J7U 1 LINK REVDAT 6 13-JUL-11 2J7U 1 VERSN REVDAT 5 24-FEB-09 2J7U 1 VERSN REVDAT 4 15-APR-08 2J7U 1 REMARK HET HETNAM HETSYN REVDAT 4 2 1 FORMUL HETATM CONECT REVDAT 3 29-JAN-08 2J7U 1 JRNL REVDAT 2 24-APR-07 2J7U 1 JRNL REVDAT 1 13-MAR-07 2J7U 0 JRNL AUTH T.L.YAP,T.XU,Y.L.CHEN,H.MALET,M.P.EGLOFF,B.CANARD, JRNL AUTH 2 S.G.VASUDEVAN,J.LESCAR JRNL TITL CRYSTAL STRUCTURE OF THE DENGUE VIRUS RNA- DEPENDENT RNA JRNL TITL 2 POLYMERASE CATALYTIC DOMAIN AT 1.85 ANGSTROM RESOLUTION. JRNL REF J.VIROL. V. 81 4753 2007 JRNL REFN ISSN 0022-538X JRNL PMID 17301146 JRNL DOI 10.1128/JVI.02283-06 REMARK 2 REMARK 2 RESOLUTION. 1.85 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 68360 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3646 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) : 4961 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2600 REMARK 3 BIN FREE R VALUE SET COUNT : 252 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4642 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 505 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.97000 REMARK 3 B22 (A**2) : 2.23000 REMARK 3 B33 (A**2) : -1.26000 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): 0.125 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.122 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.088 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.396 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4841 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6572 ; 0.919 ; 1.930 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 591 ; 4.590 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 235 ;33.979 ;23.362 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 849 ;13.633 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 41 ;15.995 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 696 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3693 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2318 ; 0.175 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3245 ; 0.296 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 478 ; 0.110 ; 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): 49 ; 0.176 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 30 ; 0.141 ; 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): 2973 ; 0.351 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4662 ; 0.602 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2199 ; 0.920 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1899 ; 1.487 ; 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 : 7 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 273 A 310 REMARK 3 ORIGIN FOR THE GROUP (A): 39.9962 73.8027 39.2236 REMARK 3 T TENSOR REMARK 3 T11: 0.1370 T22: 0.1008 REMARK 3 T33: 0.1103 T12: -0.0431 REMARK 3 T13: -0.0465 T23: -0.0124 REMARK 3 L TENSOR REMARK 3 L11: 37.5957 L22: 37.6720 REMARK 3 L33: 20.9899 L12: 7.2816 REMARK 3 L13: -2.1575 L23: 13.1546 REMARK 3 S TENSOR REMARK 3 S11: 0.1000 S12: -0.0753 S13: 1.8094 REMARK 3 S21: 0.9470 S22: -0.0866 S23: 0.0511 REMARK 3 S31: -1.0479 S32: -0.0443 S33: -0.0134 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 : A 318 A 358 REMARK 3 ORIGIN FOR THE GROUP (A): 14.2033 78.3683 18.0175 REMARK 3 T TENSOR REMARK 3 T11: 0.1092 T22: 0.0599 REMARK 3 T33: 0.1170 T12: 0.0076 REMARK 3 T13: 0.0831 T23: -0.0267 REMARK 3 L TENSOR REMARK 3 L11: 5.3266 L22: 4.3380 REMARK 3 L33: 10.7955 L12: 0.9062 REMARK 3 L13: -1.4397 L23: -0.3468 REMARK 3 S TENSOR REMARK 3 S11: 0.2720 S12: -1.1253 S13: 0.3137 REMARK 3 S21: 0.6281 S22: -0.1910 S23: -0.4480 REMARK 3 S31: -0.1467 S32: 1.3608 S33: -0.0809 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 359 A 405 REMARK 3 ORIGIN FOR THE GROUP (A): 33.8239 50.1071 21.9299 REMARK 3 T TENSOR REMARK 3 T11: -0.0157 T22: -0.1711 REMARK 3 T33: -0.0826 T12: 0.0325 REMARK 3 T13: 0.0390 T23: -0.0395 REMARK 3 L TENSOR REMARK 3 L11: 3.3934 L22: 0.4345 REMARK 3 L33: 2.2929 L12: 1.1290 REMARK 3 L13: -1.8606 L23: -0.8928 REMARK 3 S TENSOR REMARK 3 S11: 0.3106 S12: -0.0118 S13: 0.2537 REMARK 3 S21: 0.0867 S22: 0.0066 S23: -0.1013 REMARK 3 S31: -0.4523 S32: 0.0481 S33: -0.3172 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 419 A 489 REMARK 3 ORIGIN FOR THE GROUP (A): 46.4156 67.2108 19.9762 REMARK 3 T TENSOR REMARK 3 T11: 0.0390 T22: 0.0519 REMARK 3 T33: 0.1139 T12: -0.0695 REMARK 3 T13: 0.1263 T23: -0.1428 REMARK 3 L TENSOR REMARK 3 L11: 5.5325 L22: 5.6578 REMARK 3 L33: 6.3479 L12: 1.3483 REMARK 3 L13: -0.7025 L23: 0.0400 REMARK 3 S TENSOR REMARK 3 S11: 0.2775 S12: -0.5081 S13: 0.9692 REMARK 3 S21: 0.1341 S22: -0.0604 S23: -0.1296 REMARK 3 S31: -1.2076 S32: 0.3132 S33: -0.2171 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 490 A 544 REMARK 3 ORIGIN FOR THE GROUP (A): 21.4630 49.8595 15.6045 REMARK 3 T TENSOR REMARK 3 T11: -0.1599 T22: -0.1914 REMARK 3 T33: -0.2076 T12: -0.0019 REMARK 3 T13: 0.0032 T23: -0.0242 REMARK 3 L TENSOR REMARK 3 L11: 2.0991 L22: 0.5197 REMARK 3 L33: 1.9452 L12: -0.1583 REMARK 3 L13: 0.8667 L23: -0.2303 REMARK 3 S TENSOR REMARK 3 S11: 0.0923 S12: 0.0699 S13: 0.0490 REMARK 3 S21: -0.0268 S22: -0.0335 S23: -0.0876 REMARK 3 S31: -0.0433 S32: 0.0876 S33: -0.0589 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 545 A 608 REMARK 3 ORIGIN FOR THE GROUP (A): 36.7440 59.4073 29.0332 REMARK 3 T TENSOR REMARK 3 T11: 0.0383 T22: 0.0594 REMARK 3 T33: 0.0968 T12: -0.0679 REMARK 3 T13: 0.0475 T23: -0.1125 REMARK 3 L TENSOR REMARK 3 L11: 6.4625 L22: 1.0771 REMARK 3 L33: 4.5338 L12: 1.2661 REMARK 3 L13: -1.7855 L23: 0.0771 REMARK 3 S TENSOR REMARK 3 S11: 0.4277 S12: -0.6465 S13: 1.2447 REMARK 3 S21: 0.1962 S22: -0.1974 S23: -0.0654 REMARK 3 S31: -0.9511 S32: 0.4123 S33: -0.2302 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 609 A 883 REMARK 3 ORIGIN FOR THE GROUP (A): 13.7341 59.5348 8.9555 REMARK 3 T TENSOR REMARK 3 T11: -0.1468 T22: -0.1541 REMARK 3 T33: -0.1737 T12: 0.0071 REMARK 3 T13: 0.0178 T23: -0.0198 REMARK 3 L TENSOR REMARK 3 L11: 0.9570 L22: 0.8731 REMARK 3 L33: 1.5746 L12: -0.3101 REMARK 3 L13: 0.2748 L23: -0.6551 REMARK 3 S TENSOR REMARK 3 S11: 0.0605 S12: 0.0812 S13: 0.1447 REMARK 3 S21: -0.0506 S22: 0.0230 S23: -0.0219 REMARK 3 S31: -0.1714 S32: -0.0747 S33: -0.0835 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2J7U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-OCT-06. REMARK 100 THE DEPOSITION ID IS D_1290030242. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-SEP-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 72065 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 48.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.01000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.6200 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) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.54000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.980 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2HFZ REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL PH 8.5, 0.8M K/NA REMARK 280 TARTRATE, 0.5% W/V PEG MME 5K. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 28.99350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 28.99350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 80.07500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 90.23900 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 80.07500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 90.23900 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 28.99350 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 80.07500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 90.23900 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 28.99350 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 80.07500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 90.23900 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 266 REMARK 465 SER A 267 REMARK 465 HIS A 268 REMARK 465 MET A 269 REMARK 465 LEU A 270 REMARK 465 ASP A 271 REMARK 465 ASN A 272 REMARK 465 LYS A 311 REMARK 465 ALA A 312 REMARK 465 THR A 313 REMARK 465 GLY A 314 REMARK 465 SER A 315 REMARK 465 ALA A 316 REMARK 465 ALA A 406 REMARK 465 ALA A 407 REMARK 465 MET A 408 REMARK 465 GLY A 409 REMARK 465 ALA A 410 REMARK 465 VAL A 411 REMARK 465 PHE A 412 REMARK 465 THR A 413 REMARK 465 GLU A 414 REMARK 465 GLU A 415 REMARK 465 ASN A 416 REMARK 465 GLN A 417 REMARK 465 TRP A 418 REMARK 465 TYR A 451 REMARK 465 ASN A 452 REMARK 465 MET A 453 REMARK 465 MET A 454 REMARK 465 GLY A 455 REMARK 465 LYS A 456 REMARK 465 ARG A 457 REMARK 465 GLU A 458 REMARK 465 LYS A 459 REMARK 465 LYS A 460 REMARK 465 LEU A 461 REMARK 465 GLY A 462 REMARK 465 GLU A 463 REMARK 465 PHE A 464 REMARK 465 GLY A 465 REMARK 465 LYS A 466 REMARK 465 ALA A 467 REMARK 465 LYS A 468 REMARK 465 GLY A 469 REMARK 465 PRO A 884 REMARK 465 SER A 885 REMARK 465 MET A 886 REMARK 465 LYS A 887 REMARK 465 ARG A 888 REMARK 465 PHE A 889 REMARK 465 ARG A 890 REMARK 465 LYS A 891 REMARK 465 GLU A 892 REMARK 465 GLU A 893 REMARK 465 GLU A 894 REMARK 465 SER A 895 REMARK 465 GLU A 896 REMARK 465 GLY A 897 REMARK 465 ALA A 898 REMARK 465 ILE A 899 REMARK 465 TRP A 900 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASP A 274 CG OD1 OD2 REMARK 470 LYS A 300 CG CD CE NZ REMARK 470 VAL A 310 CG1 CG2 REMARK 470 SER A 317 OG REMARK 470 THR A 343 OG1 CG2 REMARK 470 ASP A 344 CG OD1 OD2 REMARK 470 GLN A 351 CG CD OE1 NE2 REMARK 470 ARG A 352 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 356 CG CD OE1 OE2 REMARK 470 LYS A 357 CG CD CE NZ REMARK 470 ASP A 419 CG OD1 OD2 REMARK 470 THR A 583 OG1 CG2 REMARK 470 THR A 585 OG1 CG2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 HIS A 287 63.59 -103.02 REMARK 500 GLU A 309 -30.37 79.31 REMARK 500 VAL A 333 45.97 -103.73 REMARK 500 LYS A 355 48.09 -91.04 REMARK 500 GLU A 356 -58.12 -128.26 REMARK 500 ASP A 359 49.54 -83.36 REMARK 500 THR A 404 32.76 -83.45 REMARK 500 SER A 448 13.31 -141.20 REMARK 500 TYR A 503 -48.28 69.28 REMARK 500 GLN A 597 156.28 74.98 REMARK 500 SER A 791 150.52 57.31 REMARK 500 ILE A 818 -70.27 -116.83 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 ZN A1885 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 437 OE1 REMARK 620 2 HIS A 441 NE2 100.7 REMARK 620 3 CYS A 446 SG 103.7 124.4 REMARK 620 4 CYS A 449 SG 108.1 107.4 111.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1886 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 664 OD2 REMARK 620 2 HOH A2165 O 89.4 REMARK 620 3 HOH A2308 O 83.9 104.8 REMARK 620 4 HOH A2310 O 87.6 71.2 170.7 REMARK 620 5 HOH A2364 O 80.3 161.9 88.9 93.5 REMARK 620 6 HOH A2478 O 173.7 92.2 89.7 98.7 99.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1884 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 712 NE2 REMARK 620 2 HIS A 714 NE2 100.6 REMARK 620 3 CYS A 728 SG 104.8 110.8 REMARK 620 4 CYS A 847 SG 101.4 111.9 123.9 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 ZN A1884 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1885 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1886 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1887 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A1888 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J7W RELATED DB: PDB REMARK 900 DENGUE VIRUS NS5 RNA DEPENDENT RNA POLYMERASE DOMAIN COMPLEXED WITH REMARK 900 3'DGTP REMARK 999 REMARK 999 SEQUENCE REMARK 999 GENBANK ACCESSION NO. AY662691, NUCLEOTIDES 8381 TO REMARK 999 10264, AMINO ACID RESIDUES 273-900. DBREF 2J7U A 273 900 UNP Q6DLV0 Q6DLV0_DEN3 2763 3390 SEQADV 2J7U GLY A 266 UNP Q6DLV0 EXPRESSION TAG SEQADV 2J7U SER A 267 UNP Q6DLV0 EXPRESSION TAG SEQADV 2J7U HIS A 268 UNP Q6DLV0 EXPRESSION TAG SEQADV 2J7U MET A 269 UNP Q6DLV0 EXPRESSION TAG SEQADV 2J7U LEU A 270 UNP Q6DLV0 EXPRESSION TAG SEQADV 2J7U ASP A 271 UNP Q6DLV0 EXPRESSION TAG SEQADV 2J7U GLU A 374 UNP Q6DLV0 GLY 2864 CONFLICT SEQADV 2J7U ALA A 480 UNP Q6DLV0 VAL 2970 CONFLICT SEQRES 1 A 635 GLY SER HIS MET LEU ASP ASN MET ASP VAL ILE GLY GLU SEQRES 2 A 635 ARG ILE LYS ARG ILE LYS GLU GLU HIS ASN SER THR TRP SEQRES 3 A 635 HIS TYR ASP ASP GLU ASN PRO TYR LYS THR TRP ALA TYR SEQRES 4 A 635 HIS GLY SER TYR GLU VAL LYS ALA THR GLY SER ALA SER SEQRES 5 A 635 SER MET ILE ASN GLY VAL VAL LYS LEU LEU THR LYS PRO SEQRES 6 A 635 TRP ASP VAL VAL PRO MET VAL THR GLN MET ALA MET THR SEQRES 7 A 635 ASP THR THR PRO PHE GLY GLN GLN ARG VAL PHE LYS GLU SEQRES 8 A 635 LYS VAL ASP THR ARG THR PRO ARG PRO LEU PRO GLY THR SEQRES 9 A 635 ARG LYS VAL MET GLU ILE THR ALA GLU TRP LEU TRP ARG SEQRES 10 A 635 THR LEU GLY ARG ASN LYS ARG PRO ARG LEU CYS THR ARG SEQRES 11 A 635 GLU GLU PHE THR LYS LYS VAL ARG THR ASN ALA ALA MET SEQRES 12 A 635 GLY ALA VAL PHE THR GLU GLU ASN GLN TRP ASP SER ALA SEQRES 13 A 635 LYS ALA ALA VAL GLU ASP GLU GLU PHE TRP LYS LEU VAL SEQRES 14 A 635 ASP ARG GLU ARG GLU LEU HIS LYS LEU GLY LYS CYS GLY SEQRES 15 A 635 SER CYS VAL TYR ASN MET MET GLY LYS ARG GLU LYS LYS SEQRES 16 A 635 LEU GLY GLU PHE GLY LYS ALA LYS GLY SER ARG ALA ILE SEQRES 17 A 635 TRP TYR MET TRP LEU GLY ALA ARG TYR LEU GLU PHE GLU SEQRES 18 A 635 ALA LEU GLY PHE LEU ASN GLU ASP HIS TRP PHE SER ARG SEQRES 19 A 635 GLU ASN SER TYR SER GLY VAL GLU GLY GLU GLY LEU HIS SEQRES 20 A 635 LYS LEU GLY TYR ILE LEU ARG ASP ILE SER LYS ILE PRO SEQRES 21 A 635 GLY GLY ALA MET TYR ALA ASP ASP THR ALA GLY TRP ASP SEQRES 22 A 635 THR ARG ILE THR GLU ASP ASP LEU HIS ASN GLU GLU LYS SEQRES 23 A 635 ILE ILE GLN GLN MET ASP PRO GLU HIS ARG GLN LEU ALA SEQRES 24 A 635 ASN ALA ILE PHE LYS LEU THR TYR GLN ASN LYS VAL VAL SEQRES 25 A 635 LYS VAL GLN ARG PRO THR PRO THR GLY THR VAL MET ASP SEQRES 26 A 635 ILE ILE SER ARG LYS ASP GLN ARG GLY SER GLY GLN VAL SEQRES 27 A 635 GLY THR TYR GLY LEU ASN THR PHE THR ASN MET GLU ALA SEQRES 28 A 635 GLN LEU VAL ARG GLN MET GLU GLY GLU GLY VAL LEU THR SEQRES 29 A 635 LYS ALA ASP LEU GLU ASN PRO HIS LEU LEU GLU LYS LYS SEQRES 30 A 635 ILE THR GLN TRP LEU GLU THR LYS GLY VAL GLU ARG LEU SEQRES 31 A 635 LYS ARG MET ALA ILE SER GLY ASP ASP CYS VAL VAL LYS SEQRES 32 A 635 PRO ILE ASP ASP ARG PHE ALA ASN ALA LEU LEU ALA LEU SEQRES 33 A 635 ASN ASP MET GLY LYS VAL ARG LYS ASP ILE PRO GLN TRP SEQRES 34 A 635 GLN PRO SER LYS GLY TRP HIS ASP TRP GLN GLN VAL PRO SEQRES 35 A 635 PHE CYS SER HIS HIS PHE HIS GLU LEU ILE MET LYS ASP SEQRES 36 A 635 GLY ARG LYS LEU VAL VAL PRO CYS ARG PRO GLN ASP GLU SEQRES 37 A 635 LEU ILE GLY ARG ALA ARG ILE SER GLN GLY ALA GLY TRP SEQRES 38 A 635 SER LEU ARG GLU THR ALA CYS LEU GLY LYS ALA TYR ALA SEQRES 39 A 635 GLN MET TRP SER LEU MET TYR PHE HIS ARG ARG ASP LEU SEQRES 40 A 635 ARG LEU ALA SER ASN ALA ILE CYS SER ALA VAL PRO VAL SEQRES 41 A 635 HIS TRP VAL PRO THR SER ARG THR THR TRP SER ILE HIS SEQRES 42 A 635 ALA HIS HIS GLN TRP MET THR THR GLU ASP MET LEU THR SEQRES 43 A 635 VAL TRP ASN ARG VAL TRP ILE GLU GLU ASN PRO TRP MET SEQRES 44 A 635 GLU ASP LYS THR PRO VAL THR THR TRP GLU ASN VAL PRO SEQRES 45 A 635 TYR LEU GLY LYS ARG GLU ASP GLN TRP CYS GLY SER LEU SEQRES 46 A 635 ILE GLY LEU THR SER ARG ALA THR TRP ALA GLN ASN ILE SEQRES 47 A 635 PRO THR ALA ILE GLN GLN VAL ARG SER LEU ILE GLY ASN SEQRES 48 A 635 GLU GLU PHE LEU ASP TYR MET PRO SER MET LYS ARG PHE SEQRES 49 A 635 ARG LYS GLU GLU GLU SER GLU GLY ALA ILE TRP HET ZN A1884 1 HET ZN A1885 1 HET MG A1886 1 HET CL A1887 1 HET PGE A1888 10 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM PGE TRIETHYLENE GLYCOL FORMUL 2 ZN 2(ZN 2+) FORMUL 4 MG MG 2+ FORMUL 5 CL CL 1- FORMUL 6 PGE C6 H14 O4 FORMUL 7 HOH *505(H2 O) HELIX 1 1 MET A 273 HIS A 287 1 15 HELIX 2 2 ASN A 321 LEU A 327 1 7 HELIX 3 3 THR A 328 VAL A 333 5 6 HELIX 4 4 VAL A 334 MET A 342 1 9 HELIX 5 5 GLN A 350 LYS A 355 1 6 HELIX 6 6 LEU A 366 GLY A 385 1 20 HELIX 7 7 THR A 394 THR A 404 1 11 HELIX 8 8 ASP A 419 ASP A 427 1 9 HELIX 9 9 ASP A 427 LEU A 443 1 17 HELIX 10 10 SER A 470 GLY A 489 1 20 HELIX 11 11 GLY A 489 ASP A 494 1 6 HELIX 12 12 SER A 498 TYR A 503 1 6 HELIX 13 13 GLY A 510 LYS A 523 1 14 HELIX 14 14 GLY A 536 ILE A 541 5 6 HELIX 15 15 THR A 542 GLU A 550 1 9 HELIX 16 16 LYS A 551 MET A 556 5 6 HELIX 17 17 ASP A 557 THR A 571 1 15 HELIX 18 18 GLY A 604 GLU A 625 1 22 HELIX 19 19 THR A 629 ASN A 635 1 7 HELIX 20 20 GLU A 640 LYS A 656 1 17 HELIX 21 21 ASP A 671 ALA A 677 5 7 HELIX 22 22 LEU A 678 MET A 684 1 7 HELIX 23 23 ASP A 702 VAL A 706 5 5 HELIX 24 24 PRO A 730 ARG A 739 1 10 HELIX 25 25 SER A 747 TYR A 766 1 20 HELIX 26 26 ARG A 769 VAL A 783 1 15 HELIX 27 27 ASP A 808 ILE A 818 1 11 HELIX 28 28 THR A 832 VAL A 836 5 5 HELIX 29 29 GLY A 840 CYS A 847 1 8 HELIX 30 30 LEU A 853 GLY A 875 1 23 SHEET 1 AA 3 ALA A 303 TYR A 308 0 SHEET 2 AA 3 VAL A 588 ARG A 594 -1 O MET A 589 N TYR A 308 SHEET 3 AA 3 LYS A 575 ARG A 581 -1 O LYS A 575 N ARG A 594 SHEET 1 AB 2 MET A 319 ILE A 320 0 SHEET 2 AB 2 ILE A 740 SER A 741 -1 O SER A 741 N MET A 319 SHEET 1 AC 2 MET A 658 SER A 661 0 SHEET 2 AC 2 ASP A 664 VAL A 667 -1 O ASP A 664 N SER A 661 SHEET 1 AD 2 HIS A 712 ILE A 717 0 SHEET 2 AD 2 LYS A 723 CYS A 728 -1 O LEU A 724 N LEU A 716 LINK OE1 GLU A 437 ZN ZN A1885 1555 1555 2.29 LINK NE2 HIS A 441 ZN ZN A1885 1555 1555 1.98 LINK SG CYS A 446 ZN ZN A1885 1555 1555 2.41 LINK SG CYS A 449 ZN ZN A1885 1555 1555 2.24 LINK OD2 ASP A 664 MG MG A1886 1555 1555 2.13 LINK NE2 HIS A 712 ZN ZN A1884 1555 1555 2.04 LINK NE2 HIS A 714 ZN ZN A1884 1555 1555 2.11 LINK SG CYS A 728 ZN ZN A1884 1555 1555 2.41 LINK SG CYS A 847 ZN ZN A1884 1555 1555 2.28 LINK MG MG A1886 O HOH A2165 1555 1555 2.25 LINK MG MG A1886 O HOH A2308 1555 1555 1.93 LINK MG MG A1886 O HOH A2310 1555 1555 2.31 LINK MG MG A1886 O HOH A2364 1555 1555 1.86 LINK MG MG A1886 O HOH A2478 1555 3555 2.18 SITE 1 AC1 4 HIS A 712 HIS A 714 CYS A 728 CYS A 847 SITE 1 AC2 4 GLU A 437 HIS A 441 CYS A 446 CYS A 449 SITE 1 AC3 6 ASP A 664 HOH A2165 HOH A2308 HOH A2310 SITE 2 AC3 6 HOH A2364 HOH A2478 SITE 1 AC4 3 ASN A 492 GLY A 604 GLY A 607 SITE 1 AC5 1 TRP A 823 CRYST1 160.150 180.478 57.987 90.00 90.00 90.00 C 2 2 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 0.006244 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005541 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017245 0.00000