HEADER HYDROLASE 15-SEP-08 2JLS TITLE DENGUE VIRUS 4 NS3 HELICASE IN COMPLEX WITH ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE PROTEASE SUBUNIT NS3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1646-2092; COMPND 5 SYNONYM: DENV4 NS3 HELICASE, NON-STRUCTURAL PROTEIN 3; COMPND 6 EC: 3.4.21.91; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DENGUE VIRUS 4; SOURCE 3 ORGANISM_TAXID: 408688; SOURCE 4 STRAIN: THAILAND/0348/1991; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RIBONUCLEOPROTEIN, NUCLEOTIDE-BINDING, VIRAL NUCLEOPROTEIN, KEYWDS 2 ENDOPLASMIC RETICULUM, HELICASE, PROTEASE, HYDROLASE, TRANSFERASE, KEYWDS 3 CLEAVAGE ON PAIR OF BASIC RESIDUES, MULTIFUNCTIONAL ENZYME, KEYWDS 4 TRANSCRIPTION REGULATION, NUCLEOTIDYLTRANSFERASE, NS3 HELICASE KEYWDS 5 STRUCTURE, ADP, VIRION, ATPASE, NUCLEUS, MEMBRANE, SECRETED, ATP- KEYWDS 6 BINDING, RNA-BINDING, FLAVIVIRUSES, GLYCOPROTEIN, RNA-DIRECTED RNA KEYWDS 7 POLYMERASE, RNA REPLICATION, SERINE PROTEASE, ENVELOPE PROTEIN, KEYWDS 8 DENGUE VIRUS, METAL-BINDING, TRANSMEMBRANE, TRANSCRIPTION, KEYWDS 9 PHOSPHOPROTEIN, CAPSID PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.H.LUO,T.XU,R.P.WATSON,D.S.BECKER,A.SAMPATH,W.JAHNKE,S.S.YEONG, AUTHOR 2 C.H.WANG,S.P.LIM,S.G.VASUDEVAN,J.LESCAR REVDAT 4 13-DEC-23 2JLS 1 LINK REVDAT 3 13-JUL-11 2JLS 1 VERSN REVDAT 2 13-JAN-09 2JLS 1 VERSN JRNL REVDAT 1 25-NOV-08 2JLS 0 JRNL AUTH D.LUO,T.XU,R.P.WATSON,D.SCHERER-BECKER,A.SAMPATH,W.JAHNKE, JRNL AUTH 2 S.S.YEONG,C.H.WANG,S.P.LIM,A.STRONGIN,S.G.VASUDEVAN,J.LESCAR JRNL TITL INSIGHTS INTO RNA UNWINDING AND ATP HYDROLYSIS BY THE JRNL TITL 2 FLAVIVIRUS NS3 PROTEIN. JRNL REF EMBO J. V. 27 3209 2008 JRNL REFN ISSN 0261-4189 JRNL PMID 19008861 JRNL DOI 10.1038/EMBOJ.2008.232 REMARK 2 REMARK 2 RESOLUTION. 2.23 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) : 2.23 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 23586 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1275 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) : 2.23 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1683 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2160 REMARK 3 BIN FREE R VALUE SET COUNT : 82 REMARK 3 BIN FREE R VALUE : 0.2710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3539 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 242 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) : 32.33 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): 0.290 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.221 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.146 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.576 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3695 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5016 ; 0.981 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 454 ; 4.794 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;34.584 ;22.690 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 645 ;13.904 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 41 ;12.358 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 547 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2809 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1687 ; 0.183 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2495 ; 0.298 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 248 ; 0.107 ; 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): 41 ; 0.139 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.098 ; 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): 2310 ; 0.318 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3638 ; 0.556 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1587 ; 0.700 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1372 ; 1.147 ; 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 : 3 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 168 A 326 REMARK 3 ORIGIN FOR THE GROUP (A): -4.6644 13.3810 7.6132 REMARK 3 T TENSOR REMARK 3 T11: -0.1398 T22: -0.0370 REMARK 3 T33: -0.1083 T12: 0.0069 REMARK 3 T13: -0.0007 T23: -0.0233 REMARK 3 L TENSOR REMARK 3 L11: 2.7939 L22: 1.9934 REMARK 3 L33: 1.9034 L12: -0.2934 REMARK 3 L13: -0.4929 L23: 0.6582 REMARK 3 S TENSOR REMARK 3 S11: -0.0267 S12: -0.4169 S13: 0.2176 REMARK 3 S21: -0.0548 S22: 0.0222 S23: 0.0506 REMARK 3 S31: -0.3390 S32: 0.0184 S33: 0.0045 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 327 A 481 REMARK 3 ORIGIN FOR THE GROUP (A): 16.6447 -3.6471 5.4317 REMARK 3 T TENSOR REMARK 3 T11: -0.1764 T22: 0.0740 REMARK 3 T33: -0.0509 T12: 0.0183 REMARK 3 T13: 0.0199 T23: -0.0237 REMARK 3 L TENSOR REMARK 3 L11: 2.3731 L22: 1.3225 REMARK 3 L33: 1.8342 L12: -0.2856 REMARK 3 L13: 0.2379 L23: 0.3647 REMARK 3 S TENSOR REMARK 3 S11: -0.0501 S12: -0.2855 S13: -0.1357 REMARK 3 S21: 0.0247 S22: 0.1593 S23: -0.2573 REMARK 3 S31: 0.2026 S32: 0.2575 S33: -0.1092 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 482 A 618 REMARK 3 ORIGIN FOR THE GROUP (A): -5.1442 -5.7124 -12.4674 REMARK 3 T TENSOR REMARK 3 T11: -0.0618 T22: -0.0755 REMARK 3 T33: -0.1258 T12: -0.0160 REMARK 3 T13: 0.0191 T23: -0.0057 REMARK 3 L TENSOR REMARK 3 L11: 1.5774 L22: 5.3866 REMARK 3 L33: 2.6600 L12: 1.1582 REMARK 3 L13: 0.0860 L23: 1.0696 REMARK 3 S TENSOR REMARK 3 S11: 0.0027 S12: 0.1146 S13: -0.1310 REMARK 3 S21: -0.1391 S22: -0.0739 S23: 0.2148 REMARK 3 S31: 0.2167 S32: -0.0638 S33: 0.0713 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 2JLS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-SEP-08. REMARK 100 THE DEPOSITION ID IS D_1290037558. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24904 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 35.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 5.300 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : 0.37000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2JLQ REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 96.46600 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 144.69900 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 48.23300 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: PQS 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 168 REMARK 465 SER A 169 REMARK 465 ALA A 170 REMARK 465 MET A 171 REMARK 465 GLY A 172 REMARK 465 GLU A 173 REMARK 465 PRO A 174 REMARK 465 ASP A 175 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 GLU A 177 CG CD OE1 OE2 REMARK 470 LYS A 213 CG CD CE NZ REMARK 470 GLU A 468 CG CD OE1 OE2 REMARK 470 ARG A 584 CG CD NE CZ NH1 NH2 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 THR A 315 136.22 -175.15 REMARK 500 ASP A 401 41.78 -88.78 REMARK 500 MET A 413 67.27 -101.90 REMARK 500 PRO A 425 3.00 -67.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2064 DISTANCE = 6.27 ANGSTROMS 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 MN A1619 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 200 OG1 REMARK 620 2 GLU A 285 OE2 95.1 REMARK 620 3 ADP A1620 O3B 89.9 171.4 REMARK 620 4 HOH A2236 O 157.9 73.9 99.0 REMARK 620 5 HOH A2237 O 86.0 82.5 91.0 73.8 REMARK 620 6 HOH A2238 O 94.3 89.7 96.8 104.6 172.2 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 MN A1619 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A1620 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A1621 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A1622 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1623 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1624 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2JLQ RELATED DB: PDB REMARK 900 DENGUE VIRUS 4 NS3 HELICASE STRUCTURE, APO ENZYME. REMARK 900 RELATED ID: 2JLR RELATED DB: PDB REMARK 900 DENGUE VIRUS 4 NS3 HELICASE IN COMPLEX WITH AMPPNP REMARK 900 RELATED ID: 2JLU RELATED DB: PDB REMARK 900 DENGUE VIRUS 4 NS3 HELICASE IN COMPLEX WITH SSRNA REMARK 900 RELATED ID: 2JLV RELATED DB: PDB REMARK 900 DENGUE VIRUS 4 NS3 HELICASE IN COMPLEX WITH SSRNA AND AMPPNP REMARK 900 RELATED ID: 2JLW RELATED DB: PDB REMARK 900 DENGUE VIRUS 4 NS3 HELICASE IN COMPLEX WITH SSRNA2 REMARK 900 RELATED ID: 2JLX RELATED DB: PDB REMARK 900 DENGUE VIRUS 4 NS3 HELICASE IN COMPLEX WITH SSRNA AND ADP-VANADATE REMARK 900 RELATED ID: 2JLY RELATED DB: PDB REMARK 900 DENGUE VIRUS 4 NS3 HELICASE IN COMPLEX WITH SSRNA AND ADP-PHOSPHATE REMARK 900 RELATED ID: 2JLZ RELATED DB: PDB REMARK 900 DENGUE VIRUS 4 NS3 HELICASE IN COMPLEX WITH SSRNA AND ADP DBREF 2JLS A 168 171 PDB 2JLS 2JLS 168 171 DBREF 2JLS A 172 618 UNP Q2YHF0 POLG_DEN4T 1646 2092 SEQADV 2JLS ASP A 250 UNP Q2YHF0 GLU 1724 CONFLICT SEQADV 2JLS CYS A 292 UNP Q2YHF0 SER 1766 CONFLICT SEQADV 2JLS SER A 321 UNP Q2YHF0 THR 1795 CONFLICT SEQADV 2JLS ARG A 381 UNP Q2YHF0 LYS 1855 CONFLICT SEQADV 2JLS LYS A 480 UNP Q2YHF0 ARG 1954 CONFLICT SEQRES 1 A 451 GLY SER ALA MET GLY GLU PRO ASP TYR GLU VAL ASP GLU SEQRES 2 A 451 ASP ILE PHE ARG LYS LYS ARG LEU THR ILE MET ASP LEU SEQRES 3 A 451 HIS PRO GLY ALA GLY LYS THR LYS ARG ILE LEU PRO SER SEQRES 4 A 451 ILE VAL ARG GLU ALA LEU LYS ARG ARG LEU ARG THR LEU SEQRES 5 A 451 ILE LEU ALA PRO THR ARG VAL VAL ALA ALA GLU MET GLU SEQRES 6 A 451 GLU ALA LEU ARG GLY LEU PRO ILE ARG TYR GLN THR PRO SEQRES 7 A 451 ALA VAL LYS SER ASP HIS THR GLY ARG GLU ILE VAL ASP SEQRES 8 A 451 LEU MET CYS HIS ALA THR PHE THR THR ARG LEU LEU SER SEQRES 9 A 451 SER THR ARG VAL PRO ASN TYR ASN LEU ILE VAL MET ASP SEQRES 10 A 451 GLU ALA HIS PHE THR ASP PRO CYS SER VAL ALA ALA ARG SEQRES 11 A 451 GLY TYR ILE SER THR ARG VAL GLU MET GLY GLU ALA ALA SEQRES 12 A 451 ALA ILE PHE MET THR ALA THR PRO PRO GLY SER THR ASP SEQRES 13 A 451 PRO PHE PRO GLN SER ASN SER PRO ILE GLU ASP ILE GLU SEQRES 14 A 451 ARG GLU ILE PRO GLU ARG SER TRP ASN THR GLY PHE ASP SEQRES 15 A 451 TRP ILE THR ASP TYR GLN GLY LYS THR VAL TRP PHE VAL SEQRES 16 A 451 PRO SER ILE LYS ALA GLY ASN ASP ILE ALA ASN CYS LEU SEQRES 17 A 451 ARG LYS SER GLY LYS ARG VAL ILE GLN LEU SER ARG LYS SEQRES 18 A 451 THR PHE ASP THR GLU TYR PRO LYS THR LYS LEU THR ASP SEQRES 19 A 451 TRP ASP PHE VAL VAL THR THR ASP ILE SER GLU MET GLY SEQRES 20 A 451 ALA ASN PHE ARG ALA GLY ARG VAL ILE ASP PRO ARG ARG SEQRES 21 A 451 CYS LEU LYS PRO VAL ILE LEU THR ASP GLY PRO GLU ARG SEQRES 22 A 451 VAL ILE LEU ALA GLY PRO ILE PRO VAL THR PRO ALA SER SEQRES 23 A 451 ALA ALA GLN ARG ARG GLY ARG ILE GLY ARG ASN PRO ALA SEQRES 24 A 451 GLN GLU ASP ASP GLN TYR VAL PHE SER GLY ASP PRO LEU SEQRES 25 A 451 LYS ASN ASP GLU ASP HIS ALA HIS TRP THR GLU ALA LYS SEQRES 26 A 451 MET LEU LEU ASP ASN ILE TYR THR PRO GLU GLY ILE ILE SEQRES 27 A 451 PRO THR LEU PHE GLY PRO GLU ARG GLU LYS THR GLN ALA SEQRES 28 A 451 ILE ASP GLY GLU PHE ARG LEU ARG GLY GLU GLN ARG LYS SEQRES 29 A 451 THR PHE VAL GLU LEU MET ARG ARG GLY ASP LEU PRO VAL SEQRES 30 A 451 TRP LEU SER TYR LYS VAL ALA SER ALA GLY ILE SER TYR SEQRES 31 A 451 LYS ASP ARG GLU TRP CYS PHE THR GLY GLU ARG ASN ASN SEQRES 32 A 451 GLN ILE LEU GLU GLU ASN MET GLU VAL GLU ILE TRP THR SEQRES 33 A 451 ARG GLU GLY GLU LYS LYS LYS LEU ARG PRO LYS TRP LEU SEQRES 34 A 451 ASP ALA ARG VAL TYR ALA ASP PRO MET ALA LEU LYS ASP SEQRES 35 A 451 PHE LYS GLU PHE ALA SER GLY ARG LYS HET MN A1619 1 HET ADP A1620 27 HET BME A1621 4 HET BME A1622 4 HET CL A1623 1 HET GOL A1624 6 HETNAM MN MANGANESE (II) ION HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM BME BETA-MERCAPTOETHANOL HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MN MN 2+ FORMUL 3 ADP C10 H15 N5 O10 P2 FORMUL 4 BME 2(C2 H6 O S) FORMUL 6 CL CL 1- FORMUL 7 GOL C3 H8 O3 FORMUL 8 HOH *242(H2 O) HELIX 1 1 ASP A 179 ARG A 184 5 6 HELIX 2 2 ARG A 202 ARG A 214 1 13 HELIX 3 3 THR A 224 LEU A 235 1 12 HELIX 4 4 HIS A 262 SER A 272 1 11 HELIX 5 5 ASP A 290 MET A 306 1 17 HELIX 6 6 PHE A 348 TYR A 354 1 7 HELIX 7 7 SER A 364 LYS A 377 1 14 HELIX 8 8 THR A 389 TYR A 394 1 6 HELIX 9 9 PRO A 395 LEU A 399 5 5 HELIX 10 10 ASP A 409 MET A 413 5 5 HELIX 11 11 THR A 450 GLY A 459 1 10 HELIX 12 12 HIS A 485 ASP A 496 1 12 HELIX 13 13 PHE A 509 THR A 516 5 8 HELIX 14 14 ARG A 526 ARG A 539 1 14 HELIX 15 15 PRO A 543 ALA A 553 1 11 HELIX 16 16 ARG A 560 PHE A 564 5 5 HELIX 17 17 GLU A 567 GLN A 571 5 5 HELIX 18 18 ALA A 598 ALA A 602 5 5 HELIX 19 19 ASP A 603 SER A 615 1 13 SHEET 1 AA 6 LEU A 188 MET A 191 0 SHEET 2 AA 6 ALA A 310 MET A 314 1 O ALA A 311 N THR A 189 SHEET 3 AA 6 LEU A 280 ASP A 284 1 O ILE A 281 N ILE A 312 SHEET 4 AA 6 THR A 218 ALA A 222 1 O LEU A 219 N VAL A 282 SHEET 5 AA 6 VAL A 257 CYS A 261 1 O ASP A 258 N ILE A 220 SHEET 6 AA 6 ILE A 240 TYR A 242 1 O ARG A 241 N LEU A 259 SHEET 1 AB 6 GLU A 333 GLU A 336 0 SHEET 2 AB 6 GLN A 471 PHE A 474 1 O TYR A 472 N ILE A 335 SHEET 3 AB 6 ARG A 421 ASP A 424 1 O VAL A 422 N VAL A 473 SHEET 4 AB 6 THR A 358 PHE A 361 1 O VAL A 359 N ILE A 423 SHEET 5 AB 6 PHE A 404 THR A 407 1 O VAL A 405 N TRP A 360 SHEET 6 AB 6 VAL A 382 LEU A 385 1 O ILE A 383 N VAL A 406 SHEET 1 AC 2 ARG A 427 LEU A 434 0 SHEET 2 AC 2 ARG A 440 PRO A 448 -1 O ARG A 440 N LEU A 434 SHEET 1 AD 2 GLU A 580 TRP A 582 0 SHEET 2 AD 2 LYS A 588 LYS A 590 -1 O LYS A 589 N ILE A 581 LINK OG1 THR A 200 MN MN A1619 1555 1555 2.36 LINK OE2 GLU A 285 MN MN A1619 1555 1555 2.44 LINK MN MN A1619 O3B ADP A1620 1555 1555 2.18 LINK MN MN A1619 O HOH A2236 1555 1555 2.45 LINK MN MN A1619 O HOH A2237 1555 1555 2.25 LINK MN MN A1619 O HOH A2238 1555 1555 2.18 CISPEP 1 GLY A 445 PRO A 446 0 3.13 SITE 1 AC1 6 THR A 200 GLU A 285 ADP A1620 HOH A2236 SITE 2 AC1 6 HOH A2237 HOH A2238 SITE 1 AC2 14 GLY A 196 ALA A 197 GLY A 198 LYS A 199 SITE 2 AC2 14 THR A 200 LYS A 201 ASN A 329 ARG A 463 SITE 3 AC2 14 MN A1619 HOH A2195 HOH A2236 HOH A2237 SITE 4 AC2 14 HOH A2239 HOH A2240 SITE 1 AC3 3 THR A 266 THR A 267 CYS A 292 SITE 1 AC4 1 CYS A 261 SITE 1 AC5 2 ARG A 387 THR A 408 SITE 1 AC6 11 PRO A 318 PRO A 319 GLY A 320 SER A 321 SITE 2 AC6 11 ALA A 452 ASP A 482 LYS A 515 HOH A2076 SITE 3 AC6 11 HOH A2190 HOH A2241 HOH A2242 CRYST1 52.313 52.313 192.932 90.00 90.00 90.00 P 43 4 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 0.019116 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019116 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005183 0.00000