HEADER TRANSFERASE/TRANSFERASE INHIBITOR 08-MAR-13 4JJU TITLE CRYSTAL STRUCTURE OF HCV NS5B POLYMERASE IN COMPLEX WITH COMPOUND 29 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GENOME POLYPROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RNA-DIRECTED RNA POLYMERASE, UNP RESIDUES 2420-2989; COMPND 5 SYNONYM: CORE PROTEIN P21, CAPSID PROTEIN C, P21, CORE PROTEIN P19, COMPND 6 ENVELOPE GLYCOPROTEIN E1, GP32, GP35, ENVELOPE GLYCOPROTEIN E2, NS1, COMPND 7 GP68, GP70, P7, PROTEASE NS2-3, P23, SERINE PROTEASE NS3, COMPND 8 HEPACIVIRIN, NS3P, P70, NON-STRUCTURAL PROTEIN 4A, NS4A, P8, NON- COMPND 9 STRUCTURAL PROTEIN 4B, NS4B, P27, NON-STRUCTURAL PROTEIN 5A, NS5A, COMPND 10 P56, RNA-DIRECTED RNA POLYMERASE, NS5B, P68; COMPND 11 EC: 3.4.22.-, 3.4.21.98, 3.6.1.15, 3.6.4.13, 2.7.7.48; COMPND 12 ENGINEERED: YES; COMPND 13 OTHER_DETAILS: PROTEIN CONSTRUCT ID 001 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HEPATITIS C VIRUS; SOURCE 3 ORGANISM_COMMON: HCV; SOURCE 4 ORGANISM_TAXID: 420174; SOURCE 5 STRAIN: 1BJ4; SOURCE 6 GENE: NS5B; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: JM109(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET29B KEYWDS VIRUS RDRP NS5B POLYMERASE, TRANSFERASE, TRANSFERASE-TRANSFERASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.COULOMBE REVDAT 4 28-FEB-24 4JJU 1 REMARK SEQADV LINK REVDAT 3 15-NOV-17 4JJU 1 REMARK REVDAT 2 10-JUL-13 4JJU 1 JRNL REVDAT 1 12-JUN-13 4JJU 0 JRNL AUTH P.L.BEAULIEU,R.COULOMBE,J.DUAN,G.FAZAL,C.GODBOUT,O.HUCKE, JRNL AUTH 2 A.JAKALIAN,M.A.JOLY,O.LEPAGE,M.LLINAS-BRUNET,J.NAUD, JRNL AUTH 3 M.POIRIER,N.RIOUX,B.THAVONEKHAM,G.KUKOLJ,T.A.STAMMERS JRNL TITL STRUCTURE-BASED DESIGN OF NOVEL HCV NS5B THUMB POCKET 2 JRNL TITL 2 ALLOSTERIC INHIBITORS WITH SUBMICROMOLAR GT1 REPLICON JRNL TITL 3 POTENCY: DISCOVERY OF A QUINAZOLINONE CHEMOTYPE. JRNL REF BIOORG.MED.CHEM.LETT. V. 23 4132 2013 JRNL REFN ISSN 0960-894X JRNL PMID 23768906 JRNL DOI 10.1016/J.BMCL.2013.05.037 REMARK 2 REMARK 2 RESOLUTION. 1.91 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNX REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN,ACCELRYS REMARK 3 : SOFTWARE INC.(BADGER,BERARD,KUMAR,SZALMA, REMARK 3 : YIP,DZAKULA) REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 121688 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RAMDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 6085 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 123838 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8704 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 78 REMARK 3 SOLVENT ATOMS : 903 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.195 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4JJU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-MAR-13. REMARK 100 THE DEPOSITION ID IS D_1000078136. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-AUG-08 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 5.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 121688 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.910 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.540 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.0300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.35600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.860 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: PDB ENTRY 3MWV REMARK 200 SOFTWARE USED: CNX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM MES, 21% PEGMME 5000, 400 MM REMARK 280 AMMONIUM SULFATE, 10% GLYCEROL, PH 5.4, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 262K 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 53.53500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 67.44000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 54.19500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 67.44000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 53.53500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 54.19500 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 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 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 GLU A 150 REMARK 465 LYS A 151 REMARK 465 GLY A 152 REMARK 465 GLY A 153 REMARK 465 LEU A 564 REMARK 465 SER A 565 REMARK 465 ARG A 566 REMARK 465 ALA A 567 REMARK 465 ARG A 568 REMARK 465 PRO A 569 REMARK 465 ARG A 570 REMARK 465 HIS A 571 REMARK 465 HIS A 572 REMARK 465 HIS A 573 REMARK 465 HIS A 574 REMARK 465 HIS A 575 REMARK 465 HIS A 576 REMARK 465 GLN B 148 REMARK 465 PRO B 149 REMARK 465 GLU B 150 REMARK 465 LYS B 151 REMARK 465 GLY B 152 REMARK 465 LEU B 564 REMARK 465 SER B 565 REMARK 465 ARG B 566 REMARK 465 ALA B 567 REMARK 465 ARG B 568 REMARK 465 PRO B 569 REMARK 465 ARG B 570 REMARK 465 HIS B 571 REMARK 465 HIS B 572 REMARK 465 HIS B 573 REMARK 465 HIS B 574 REMARK 465 HIS B 575 REMARK 465 HIS B 576 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 B 755 O HOH B 958 2.14 REMARK 500 REMARK 500 REMARK: NULL 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 LEU A 260 -55.90 -132.21 REMARK 500 SER A 347 51.60 71.09 REMARK 500 ALA A 348 57.24 -144.97 REMARK 500 SER A 367 13.76 58.04 REMARK 500 ILE A 424 -62.46 -104.24 REMARK 500 GLU B 131 -40.63 -132.02 REMARK 500 LEU B 260 -54.77 -130.10 REMARK 500 ALA B 348 57.17 -154.20 REMARK 500 SER B 367 16.23 59.03 REMARK 500 ILE B 424 -61.98 -102.41 REMARK 500 GLN B 544 40.11 -89.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A3003 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 194 O REMARK 620 2 PHE A 551 O 82.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A3004 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 220 OD1 REMARK 620 2 THR A 221 O 89.1 REMARK 620 3 HOH A3214 O 82.8 91.0 REMARK 620 4 HOH A3314 O 97.1 80.9 171.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 603 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN B 194 O REMARK 620 2 PHE B 551 O 79.9 REMARK 620 3 HOH B 845 O 81.1 106.3 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1MB A 3002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 3003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 3004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1MB B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 604 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3MWV RELATED DB: PDB REMARK 900 APO NS5B POLYMERASE REMARK 900 RELATED ID: 4JJS RELATED DB: PDB DBREF 4JJU A 1 570 UNP O92972 POLG_HCVJ4 2420 2989 DBREF 4JJU B 1 570 UNP O92972 POLG_HCVJ4 2420 2989 SEQADV 4JJU HIS A 571 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS A 572 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS A 573 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS A 574 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS A 575 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS A 576 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS B 571 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS B 572 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS B 573 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS B 574 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS B 575 UNP O92972 EXPRESSION TAG SEQADV 4JJU HIS B 576 UNP O92972 EXPRESSION TAG SEQRES 1 A 576 SER MET SER TYR THR TRP THR GLY ALA LEU ILE THR PRO SEQRES 2 A 576 CYS ALA ALA GLU GLU SER LYS LEU PRO ILE ASN PRO LEU SEQRES 3 A 576 SER ASN SER LEU LEU ARG HIS HIS ASN MET VAL TYR ALA SEQRES 4 A 576 THR THR SER ARG SER ALA SER LEU ARG GLN LYS LYS VAL SEQRES 5 A 576 THR PHE ASP ARG LEU GLN VAL LEU ASP ASP HIS TYR ARG SEQRES 6 A 576 ASP VAL LEU LYS GLU MET LYS ALA LYS ALA SER THR VAL SEQRES 7 A 576 LYS ALA LYS LEU LEU SER ILE GLU GLU ALA CYS LYS LEU SEQRES 8 A 576 THR PRO PRO HIS SER ALA LYS SER LYS PHE GLY TYR GLY SEQRES 9 A 576 ALA LYS ASP VAL ARG ASN LEU SER SER ARG ALA VAL ASN SEQRES 10 A 576 HIS ILE ARG SER VAL TRP GLU ASP LEU LEU GLU ASP THR SEQRES 11 A 576 GLU THR PRO ILE ASP THR THR ILE MET ALA LYS SER GLU SEQRES 12 A 576 VAL PHE CYS VAL GLN PRO GLU LYS GLY GLY ARG LYS PRO SEQRES 13 A 576 ALA ARG LEU ILE VAL PHE PRO ASP LEU GLY VAL ARG VAL SEQRES 14 A 576 CYS GLU LYS MET ALA LEU TYR ASP VAL VAL SER THR LEU SEQRES 15 A 576 PRO GLN ALA VAL MET GLY SER SER TYR GLY PHE GLN TYR SEQRES 16 A 576 SER PRO LYS GLN ARG VAL GLU PHE LEU VAL ASN THR TRP SEQRES 17 A 576 LYS SER LYS LYS CYS PRO MET GLY PHE SER TYR ASP THR SEQRES 18 A 576 ARG CYS PHE ASP SER THR VAL THR GLU SER ASP ILE ARG SEQRES 19 A 576 VAL GLU GLU SER ILE TYR GLN CYS CYS ASP LEU ALA PRO SEQRES 20 A 576 GLU ALA ARG GLN ALA ILE ARG SER LEU THR GLU ARG LEU SEQRES 21 A 576 TYR ILE GLY GLY PRO LEU THR ASN SER LYS GLY GLN ASN SEQRES 22 A 576 CYS GLY TYR ARG ARG CYS ARG ALA SER GLY VAL LEU THR SEQRES 23 A 576 THR SER CYS GLY ASN THR LEU THR CYS TYR LEU LYS ALA SEQRES 24 A 576 THR ALA ALA CYS ARG ALA ALA LYS LEU GLN ASP CYS THR SEQRES 25 A 576 MET LEU VAL ASN GLY ASP ASP LEU VAL VAL ILE CYS GLU SEQRES 26 A 576 SER ALA GLY THR GLN GLU ASP ALA ALA ALA LEU ARG ALA SEQRES 27 A 576 PHE THR GLU ALA MET THR ARG TYR SER ALA PRO PRO GLY SEQRES 28 A 576 ASP PRO PRO GLN PRO GLU TYR ASP LEU GLU LEU ILE THR SEQRES 29 A 576 SER CYS SER SER ASN VAL SER VAL ALA HIS ASP ALA SER SEQRES 30 A 576 GLY LYS ARG VAL TYR TYR LEU THR ARG ASP PRO THR THR SEQRES 31 A 576 PRO LEU ALA ARG ALA ALA TRP GLU THR ALA ARG HIS THR SEQRES 32 A 576 PRO ILE ASN SER TRP LEU GLY ASN ILE ILE MET TYR ALA SEQRES 33 A 576 PRO THR LEU TRP ALA ARG MET ILE LEU MET THR HIS PHE SEQRES 34 A 576 PHE SER ILE LEU LEU ALA GLN GLU GLN LEU GLU LYS ALA SEQRES 35 A 576 LEU ASP CYS GLN ILE TYR GLY ALA CYS TYR SER ILE GLU SEQRES 36 A 576 PRO LEU ASP LEU PRO GLN ILE ILE GLU ARG LEU HIS GLY SEQRES 37 A 576 LEU SER ALA PHE THR LEU HIS SER TYR SER PRO GLY GLU SEQRES 38 A 576 ILE ASN ARG VAL ALA SER CYS LEU ARG LYS LEU GLY VAL SEQRES 39 A 576 PRO PRO LEU ARG THR TRP ARG HIS ARG ALA ARG SER VAL SEQRES 40 A 576 ARG ALA LYS LEU LEU SER GLN GLY GLY ARG ALA ALA THR SEQRES 41 A 576 CYS GLY ARG TYR LEU PHE ASN TRP ALA VAL ARG THR LYS SEQRES 42 A 576 LEU LYS LEU THR PRO ILE PRO ALA ALA SER GLN LEU ASP SEQRES 43 A 576 LEU SER GLY TRP PHE VAL ALA GLY TYR SER GLY GLY ASP SEQRES 44 A 576 ILE TYR HIS SER LEU SER ARG ALA ARG PRO ARG HIS HIS SEQRES 45 A 576 HIS HIS HIS HIS SEQRES 1 B 576 SER MET SER TYR THR TRP THR GLY ALA LEU ILE THR PRO SEQRES 2 B 576 CYS ALA ALA GLU GLU SER LYS LEU PRO ILE ASN PRO LEU SEQRES 3 B 576 SER ASN SER LEU LEU ARG HIS HIS ASN MET VAL TYR ALA SEQRES 4 B 576 THR THR SER ARG SER ALA SER LEU ARG GLN LYS LYS VAL SEQRES 5 B 576 THR PHE ASP ARG LEU GLN VAL LEU ASP ASP HIS TYR ARG SEQRES 6 B 576 ASP VAL LEU LYS GLU MET LYS ALA LYS ALA SER THR VAL SEQRES 7 B 576 LYS ALA LYS LEU LEU SER ILE GLU GLU ALA CYS LYS LEU SEQRES 8 B 576 THR PRO PRO HIS SER ALA LYS SER LYS PHE GLY TYR GLY SEQRES 9 B 576 ALA LYS ASP VAL ARG ASN LEU SER SER ARG ALA VAL ASN SEQRES 10 B 576 HIS ILE ARG SER VAL TRP GLU ASP LEU LEU GLU ASP THR SEQRES 11 B 576 GLU THR PRO ILE ASP THR THR ILE MET ALA LYS SER GLU SEQRES 12 B 576 VAL PHE CYS VAL GLN PRO GLU LYS GLY GLY ARG LYS PRO SEQRES 13 B 576 ALA ARG LEU ILE VAL PHE PRO ASP LEU GLY VAL ARG VAL SEQRES 14 B 576 CYS GLU LYS MET ALA LEU TYR ASP VAL VAL SER THR LEU SEQRES 15 B 576 PRO GLN ALA VAL MET GLY SER SER TYR GLY PHE GLN TYR SEQRES 16 B 576 SER PRO LYS GLN ARG VAL GLU PHE LEU VAL ASN THR TRP SEQRES 17 B 576 LYS SER LYS LYS CYS PRO MET GLY PHE SER TYR ASP THR SEQRES 18 B 576 ARG CYS PHE ASP SER THR VAL THR GLU SER ASP ILE ARG SEQRES 19 B 576 VAL GLU GLU SER ILE TYR GLN CYS CYS ASP LEU ALA PRO SEQRES 20 B 576 GLU ALA ARG GLN ALA ILE ARG SER LEU THR GLU ARG LEU SEQRES 21 B 576 TYR ILE GLY GLY PRO LEU THR ASN SER LYS GLY GLN ASN SEQRES 22 B 576 CYS GLY TYR ARG ARG CYS ARG ALA SER GLY VAL LEU THR SEQRES 23 B 576 THR SER CYS GLY ASN THR LEU THR CYS TYR LEU LYS ALA SEQRES 24 B 576 THR ALA ALA CYS ARG ALA ALA LYS LEU GLN ASP CYS THR SEQRES 25 B 576 MET LEU VAL ASN GLY ASP ASP LEU VAL VAL ILE CYS GLU SEQRES 26 B 576 SER ALA GLY THR GLN GLU ASP ALA ALA ALA LEU ARG ALA SEQRES 27 B 576 PHE THR GLU ALA MET THR ARG TYR SER ALA PRO PRO GLY SEQRES 28 B 576 ASP PRO PRO GLN PRO GLU TYR ASP LEU GLU LEU ILE THR SEQRES 29 B 576 SER CYS SER SER ASN VAL SER VAL ALA HIS ASP ALA SER SEQRES 30 B 576 GLY LYS ARG VAL TYR TYR LEU THR ARG ASP PRO THR THR SEQRES 31 B 576 PRO LEU ALA ARG ALA ALA TRP GLU THR ALA ARG HIS THR SEQRES 32 B 576 PRO ILE ASN SER TRP LEU GLY ASN ILE ILE MET TYR ALA SEQRES 33 B 576 PRO THR LEU TRP ALA ARG MET ILE LEU MET THR HIS PHE SEQRES 34 B 576 PHE SER ILE LEU LEU ALA GLN GLU GLN LEU GLU LYS ALA SEQRES 35 B 576 LEU ASP CYS GLN ILE TYR GLY ALA CYS TYR SER ILE GLU SEQRES 36 B 576 PRO LEU ASP LEU PRO GLN ILE ILE GLU ARG LEU HIS GLY SEQRES 37 B 576 LEU SER ALA PHE THR LEU HIS SER TYR SER PRO GLY GLU SEQRES 38 B 576 ILE ASN ARG VAL ALA SER CYS LEU ARG LYS LEU GLY VAL SEQRES 39 B 576 PRO PRO LEU ARG THR TRP ARG HIS ARG ALA ARG SER VAL SEQRES 40 B 576 ARG ALA LYS LEU LEU SER GLN GLY GLY ARG ALA ALA THR SEQRES 41 B 576 CYS GLY ARG TYR LEU PHE ASN TRP ALA VAL ARG THR LYS SEQRES 42 B 576 LEU LYS LEU THR PRO ILE PRO ALA ALA SER GLN LEU ASP SEQRES 43 B 576 LEU SER GLY TRP PHE VAL ALA GLY TYR SER GLY GLY ASP SEQRES 44 B 576 ILE TYR HIS SER LEU SER ARG ALA ARG PRO ARG HIS HIS SEQRES 45 B 576 HIS HIS HIS HIS HET GOL A3001 6 HET 1MB A3002 31 HET MG A3003 1 HET MG A3004 1 HET GOL B 601 6 HET 1MB B 602 31 HET MG B 603 1 HET MG B 604 1 HETNAM GOL GLYCEROL HETNAM 1MB 1-(2,4-DIFLUOROBENZYL)-6-{[3-(TRIFLUOROMETHYL)PYRIDIN- HETNAM 2 1MB 2-YL]OXY}QUINAZOLIN-4(1H)-ONE HETNAM MG MAGNESIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 2(C3 H8 O3) FORMUL 4 1MB 2(C21 H12 F5 N3 O2) FORMUL 5 MG 4(MG 2+) FORMUL 11 HOH *903(H2 O) HELIX 1 1 HIS A 33 ASN A 35 5 3 HELIX 2 2 THR A 41 ARG A 43 5 3 HELIX 3 3 SER A 44 THR A 53 1 10 HELIX 4 4 ASP A 61 SER A 76 1 16 HELIX 5 5 SER A 84 LEU A 91 1 8 HELIX 6 6 GLY A 104 ASN A 110 1 7 HELIX 7 7 SER A 112 ASP A 129 1 18 HELIX 8 8 ASP A 164 GLY A 188 1 25 HELIX 9 9 SER A 189 TYR A 195 5 7 HELIX 10 10 SER A 196 SER A 210 1 15 HELIX 11 11 CYS A 223 VAL A 228 1 6 HELIX 12 12 THR A 229 GLN A 241 1 13 HELIX 13 13 ALA A 246 LEU A 260 1 15 HELIX 14 14 THR A 286 LYS A 307 1 22 HELIX 15 15 GLY A 328 TYR A 346 1 19 HELIX 16 16 ASP A 359 ILE A 363 5 5 HELIX 17 17 PRO A 388 ARG A 401 1 14 HELIX 18 18 ASN A 406 TYR A 415 1 10 HELIX 19 19 THR A 418 ILE A 424 1 7 HELIX 20 20 ILE A 424 GLN A 436 1 13 HELIX 21 21 GLU A 455 LEU A 457 5 3 HELIX 22 22 ASP A 458 GLY A 468 1 11 HELIX 23 23 LEU A 469 THR A 473 5 5 HELIX 24 24 SER A 478 GLY A 493 1 16 HELIX 25 25 PRO A 496 GLY A 515 1 20 HELIX 26 26 GLY A 515 PHE A 526 1 12 HELIX 27 27 ASN A 527 VAL A 530 5 4 HELIX 28 28 ILE A 539 LEU A 545 5 7 HELIX 29 29 LEU A 547 VAL A 552 5 6 HELIX 30 30 PRO B 25 LEU B 30 5 6 HELIX 31 31 HIS B 33 ASN B 35 5 3 HELIX 32 32 THR B 41 ARG B 43 5 3 HELIX 33 33 SER B 44 THR B 53 1 10 HELIX 34 34 ASP B 61 SER B 76 1 16 HELIX 35 35 SER B 84 LEU B 91 1 8 HELIX 36 36 GLY B 104 ASN B 110 1 7 HELIX 37 37 SER B 112 ASP B 129 1 18 HELIX 38 38 ASP B 164 GLY B 188 1 25 HELIX 39 39 SER B 189 TYR B 195 5 7 HELIX 40 40 SER B 196 SER B 210 1 15 HELIX 41 41 CYS B 223 VAL B 228 1 6 HELIX 42 42 THR B 229 GLN B 241 1 13 HELIX 43 43 ALA B 246 LEU B 260 1 15 HELIX 44 44 THR B 286 LYS B 307 1 22 HELIX 45 45 GLY B 328 TYR B 346 1 19 HELIX 46 46 ASP B 359 ILE B 363 5 5 HELIX 47 47 PRO B 388 ARG B 401 1 14 HELIX 48 48 ASN B 406 TYR B 415 1 10 HELIX 49 49 THR B 418 ILE B 424 1 7 HELIX 50 50 ILE B 424 GLN B 436 1 13 HELIX 51 51 GLU B 455 LEU B 457 5 3 HELIX 52 52 ASP B 458 GLY B 468 1 11 HELIX 53 53 LEU B 469 THR B 473 5 5 HELIX 54 54 SER B 478 GLY B 493 1 16 HELIX 55 55 PRO B 496 GLY B 515 1 20 HELIX 56 56 GLY B 516 LEU B 525 1 10 HELIX 57 57 ILE B 539 SER B 543 5 5 HELIX 58 58 LEU B 547 VAL B 552 5 6 SHEET 1 A 5 TYR A 4 TRP A 6 0 SHEET 2 A 5 ASN A 273 ARG A 277 -1 O TYR A 276 N THR A 5 SHEET 3 A 5 GLY A 264 THR A 267 -1 N LEU A 266 O CYS A 274 SHEET 4 A 5 THR A 136 ALA A 140 1 N THR A 136 O THR A 267 SHEET 5 A 5 LEU A 159 PHE A 162 -1 O PHE A 162 N THR A 137 SHEET 1 B 2 VAL A 37 ALA A 39 0 SHEET 2 B 2 VAL A 144 CYS A 146 -1 O PHE A 145 N TYR A 38 SHEET 1 C 3 PRO A 214 TYR A 219 0 SHEET 2 C 3 ASP A 319 GLU A 325 -1 O CYS A 324 N MET A 215 SHEET 3 C 3 GLN A 309 ASN A 316 -1 N GLN A 309 O GLU A 325 SHEET 1 D 2 ASN A 369 HIS A 374 0 SHEET 2 D 2 ARG A 380 THR A 385 -1 O VAL A 381 N ALA A 373 SHEET 1 E 2 LEU A 443 ILE A 447 0 SHEET 2 E 2 ALA A 450 ILE A 454 -1 O ILE A 454 N LEU A 443 SHEET 1 F 5 TYR B 4 TRP B 6 0 SHEET 2 F 5 ASN B 273 ARG B 277 -1 O TYR B 276 N THR B 5 SHEET 3 F 5 GLY B 264 THR B 267 -1 N LEU B 266 O CYS B 274 SHEET 4 F 5 THR B 136 ALA B 140 1 N ILE B 138 O THR B 267 SHEET 5 F 5 LEU B 159 PHE B 162 -1 O PHE B 162 N THR B 137 SHEET 1 G 2 VAL B 37 ALA B 39 0 SHEET 2 G 2 VAL B 144 CYS B 146 -1 O PHE B 145 N TYR B 38 SHEET 1 H 3 PRO B 214 TYR B 219 0 SHEET 2 H 3 ASP B 319 GLU B 325 -1 O CYS B 324 N MET B 215 SHEET 3 H 3 GLN B 309 ASN B 316 -1 N GLN B 309 O GLU B 325 SHEET 1 I 2 ASN B 369 HIS B 374 0 SHEET 2 I 2 ARG B 380 THR B 385 -1 O VAL B 381 N ALA B 373 SHEET 1 J 2 LEU B 443 ILE B 447 0 SHEET 2 J 2 ALA B 450 ILE B 454 -1 O ILE B 454 N LEU B 443 LINK O GLN A 194 MG MG A3003 1555 1555 2.46 LINK OD1 ASP A 220 MG MG A3004 1555 1555 2.49 LINK O THR A 221 MG MG A3004 1555 1555 2.39 LINK O PHE A 551 MG MG A3003 1555 1555 2.44 LINK MG MG A3004 O HOH A3214 1555 1555 2.62 LINK MG MG A3004 O HOH A3314 1555 1555 2.77 LINK O GLN B 194 MG MG B 603 1555 1555 2.56 LINK O PHE B 551 MG MG B 603 1555 1555 2.46 LINK MG MG B 603 O HOH B 845 1555 1555 2.59 SITE 1 AC1 4 SER A 96 ALA A 97 PHE A 162 ASP A 559 SITE 1 AC2 14 LEU A 419 ARG A 422 MET A 423 LEU A 474 SITE 2 AC2 14 HIS A 475 SER A 476 TYR A 477 ILE A 482 SITE 3 AC2 14 VAL A 485 ALA A 486 LEU A 489 LEU A 497 SITE 4 AC2 14 TRP A 528 HOH A3423 SITE 1 AC3 2 GLN A 194 PHE A 551 SITE 1 AC4 4 ASP A 220 THR A 221 HOH A3214 HOH A3314 SITE 1 AC5 5 SER B 96 ALA B 97 PHE B 162 GLY B 283 SITE 2 AC5 5 ASP B 559 SITE 1 AC6 11 LEU B 419 ARG B 422 MET B 423 LEU B 474 SITE 2 AC6 11 SER B 476 TYR B 477 ILE B 482 VAL B 485 SITE 3 AC6 11 ALA B 486 LEU B 489 TRP B 528 SITE 1 AC7 3 GLN B 194 PHE B 551 HOH B 845 SITE 1 AC8 1 ASP B 318 CRYST1 107.070 108.390 134.880 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 0.009340 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009226 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007414 0.00000