HEADER TRANSFERASE 27-MAR-09 3GSZ TITLE STRUCTURE OF THE GENOTYPE 2B HCV POLYMERASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA-DIRECTED RNA POLYMERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: NS5B; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HEPATITIS C VIRUS ISOLATE HC-J8; SOURCE 3 ORGANISM_COMMON: HCV; SOURCE 4 ORGANISM_TAXID: 11115; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS POLYMERASE, HCV, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.H.RYDBERG,A.CARFI REVDAT 3 21-FEB-24 3GSZ 1 SEQADV REVDAT 2 28-JUL-09 3GSZ 1 JRNL REVDAT 1 07-JUL-09 3GSZ 0 JRNL AUTH E.H.RYDBERG,A.CELLUCCI,L.BARTHOLOMEW,M.MATTU,G.BARBATO, JRNL AUTH 2 S.W.LUDMERER,D.J.GRAHAM,S.ALTAMURA,G.PAONESSA, JRNL AUTH 3 R.DE FRANCESCO,G.MIGLIACCIO,A.CARFI JRNL TITL STRUCTURAL BASIS FOR RESISTANCE OF THE GENOTYPE 2B HEPATITIS JRNL TITL 2 C VIRUS NS5B POLYMERASE TO SITE A NON-NUCLEOSIDE INHIBITORS. JRNL REF J.MOL.BIOL. V. 390 1048 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 19505479 JRNL DOI 10.1016/J.JMB.2009.06.012 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 96413 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5127 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6168 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1970 REMARK 3 BIN FREE R VALUE SET COUNT : 327 REMARK 3 BIN FREE R VALUE : 0.2470 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8746 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 825 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.32000 REMARK 3 B22 (A**2) : 0.22000 REMARK 3 B33 (A**2) : 0.10000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.40000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.131 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.128 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.089 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.976 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 8942 ; 0.024 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 8218 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 12134 ; 1.870 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): 19046 ; 0.976 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1112 ; 5.638 ; 5.000 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): 1362 ; 0.136 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 9896 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1886 ; 0.007 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1804 ; 0.220 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 9333 ; 0.250 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 5374 ; 0.089 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 546 ; 0.183 ; 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): 13 ; 0.155 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 106 ; 0.275 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 28 ; 0.152 ; 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): 5578 ; 1.344 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 9018 ; 2.446 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3364 ; 3.787 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3116 ; 6.108 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 3GSZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000052268. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-FEB-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 104470 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07300 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.36600 REMARK 200 FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NS5B GENOTYPE 2A REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6.5MG/ML ENZYME, 10% PEG4K, 100MM REMARK 280 NACITRATE, 200MM NACL, 5MM DTT , PH 6.1, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 300K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 76.62550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.24850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 76.62550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.24850 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 PRO A 149 REMARK 465 THR A 150 REMARK 465 LYS A 151 REMARK 465 GLY A 152 REMARK 465 GLY A 153 REMARK 465 PRO B 149 REMARK 465 THR B 150 REMARK 465 LYS B 151 REMARK 465 GLY B 152 REMARK 465 GLY B 153 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 OH TYR B 452 O TRP B 550 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 MET A 187 SD MET A 187 CE -0.377 REMARK 500 VAL A 321 CB VAL A 321 CG2 -0.126 REMARK 500 GLU B 470 CD GLU B 470 OE1 0.067 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 ASP A 164 CB - CG - OD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG A 277 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 278 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP A 310 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG A 337 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 GLY A 554 C - N - CA ANGL. DEV. = -14.2 DEGREES REMARK 500 ARG B 56 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ASP B 125 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP B 129 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP B 164 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ARG B 234 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG B 498 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG B 544 CG - CD - NE ANGL. DEV. = -12.8 DEGREES REMARK 500 ARG B 544 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES 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 TYR A 101 32.13 -97.37 REMARK 500 LEU A 260 -60.15 -131.33 REMARK 500 SER A 347 56.67 72.92 REMARK 500 VAL A 424 -61.16 -102.09 REMARK 500 ASN A 440 56.24 -100.39 REMARK 500 ALA A 516 -130.75 51.42 REMARK 500 LEU B 260 -57.36 -132.80 REMARK 500 SER B 347 53.54 74.54 REMARK 500 SER B 367 -0.27 67.54 REMARK 500 VAL B 424 -62.65 -103.44 REMARK 500 ASN B 440 37.76 -96.68 REMARK 500 ALA B 516 -136.99 52.94 REMARK 500 LEU B 547 30.20 -96.07 REMARK 500 THR B 552 -55.51 -132.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 465 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 3GSZ A 1 563 UNP P26661 POLG_HCVJ8 2443 3005 DBREF 3GSZ B 1 563 UNP P26661 POLG_HCVJ8 2443 3005 SEQADV 3GSZ THR A 5 UNP P26661 SER 2447 CONFLICT SEQADV 3GSZ THR B 5 UNP P26661 SER 2447 CONFLICT SEQRES 1 A 563 SER MET SER TYR THR TRP THR GLY ALA LEU ILE THR PRO SEQRES 2 A 563 CYS GLY PRO GLU GLU GLU LYS LEU PRO ILE ASN PRO LEU SEQRES 3 A 563 SER ASN SER LEU MET ARG PHE HIS ASN LYS VAL TYR SER SEQRES 4 A 563 THR THR SER ARG SER ALA SER LEU ARG ALA LYS LYS VAL SEQRES 5 A 563 THR PHE ASP ARG VAL GLN VAL LEU ASP ALA HIS TYR ASP SEQRES 6 A 563 SER VAL LEU GLN ASP VAL LYS ARG ALA ALA SER LYS VAL SEQRES 7 A 563 SER ALA ARG LEU LEU THR VAL GLU GLU ALA CYS ALA LEU SEQRES 8 A 563 THR PRO PRO HIS SER ALA LYS SER ARG TYR GLY PHE GLY SEQRES 9 A 563 ALA LYS GLU VAL ARG SER LEU SER ARG ARG ALA VAL ASN SEQRES 10 A 563 HIS ILE ARG SER VAL TRP GLU ASP LEU LEU GLU ASP GLN SEQRES 11 A 563 HIS THR PRO ILE ASP THR THR ILE MET ALA LYS ASN GLU SEQRES 12 A 563 VAL PHE CYS ILE ASP PRO THR LYS GLY GLY LYS LYS PRO SEQRES 13 A 563 ALA ARG LEU ILE VAL TYR PRO ASP LEU GLY VAL ARG VAL SEQRES 14 A 563 CYS GLU LYS MET ALA LEU TYR ASP ILE ALA GLN LYS LEU SEQRES 15 A 563 PRO LYS ALA ILE MET GLY PRO SER TYR GLY PHE GLN TYR SEQRES 16 A 563 SER PRO ALA GLU ARG VAL ASP PHE LEU LEU LYS ALA TRP SEQRES 17 A 563 GLY SER LYS LYS ASP PRO MET GLY PHE SER TYR ASP THR SEQRES 18 A 563 ARG CYS PHE ASP SER THR VAL THR GLU ARG ASP ILE ARG SEQRES 19 A 563 THR GLU GLU SER ILE TYR GLN ALA CYS SER LEU PRO GLN SEQRES 20 A 563 GLU ALA ARG THR VAL ILE HIS SER LEU THR GLU ARG LEU SEQRES 21 A 563 TYR VAL GLY GLY PRO MET THR ASN SER LYS GLY GLN SER SEQRES 22 A 563 CYS GLY TYR ARG ARG CYS ARG ALA SER GLY VAL PHE THR SEQRES 23 A 563 THR SER MET GLY ASN THR MET THR CYS TYR ILE LYS ALA SEQRES 24 A 563 LEU ALA ALA CYS LYS ALA ALA GLY ILE VAL ASP PRO VAL SEQRES 25 A 563 MET LEU VAL CYS GLY ASP ASP LEU VAL VAL ILE SER GLU SEQRES 26 A 563 SER GLN GLY ASN GLU GLU ASP GLU ARG ASN LEU ARG ALA SEQRES 27 A 563 PHE THR GLU ALA MET THR ARG TYR SER ALA PRO PRO GLY SEQRES 28 A 563 ASP LEU PRO ARG PRO GLU TYR ASP LEU GLU LEU ILE THR SEQRES 29 A 563 SER CYS SER SER ASN VAL SER VAL ALA LEU ASP SER ARG SEQRES 30 A 563 GLY ARG ARG ARG TYR PHE LEU THR ARG ASP PRO THR THR SEQRES 31 A 563 PRO ILE THR ARG ALA ALA TRP GLU THR VAL ARG HIS SER SEQRES 32 A 563 PRO VAL ASN SER TRP LEU GLY ASN ILE ILE GLN TYR ALA SEQRES 33 A 563 PRO THR ILE TRP VAL ARG MET VAL ILE MET THR HIS PHE SEQRES 34 A 563 PHE SER ILE LEU LEU ALA GLN ASP THR LEU ASN GLN ASN SEQRES 35 A 563 LEU ASN PHE GLU MET TYR GLY ALA VAL TYR SER VAL ASN SEQRES 36 A 563 PRO LEU ASP LEU PRO ALA ILE ILE GLU ARG LEU HIS GLY SEQRES 37 A 563 LEU GLU ALA PHE SER LEU HIS THR TYR SER PRO HIS GLU SEQRES 38 A 563 LEU SER ARG VAL ALA ALA THR LEU ARG LYS LEU GLY ALA SEQRES 39 A 563 PRO PRO LEU ARG ALA TRP LYS SER ARG ALA ARG ALA VAL SEQRES 40 A 563 ARG ALA SER LEU ILE ALA GLN GLY ALA ARG ALA ALA ILE SEQRES 41 A 563 CYS GLY ARG TYR LEU PHE ASN TRP ALA VAL LYS THR LYS SEQRES 42 A 563 LEU LYS LEU THR PRO LEU PRO GLU ALA SER ARG LEU ASP SEQRES 43 A 563 LEU SER GLY TRP PHE THR VAL GLY ALA GLY GLY GLY ASP SEQRES 44 A 563 ILE TYR HIS SER SEQRES 1 B 563 SER MET SER TYR THR TRP THR GLY ALA LEU ILE THR PRO SEQRES 2 B 563 CYS GLY PRO GLU GLU GLU LYS LEU PRO ILE ASN PRO LEU SEQRES 3 B 563 SER ASN SER LEU MET ARG PHE HIS ASN LYS VAL TYR SER SEQRES 4 B 563 THR THR SER ARG SER ALA SER LEU ARG ALA LYS LYS VAL SEQRES 5 B 563 THR PHE ASP ARG VAL GLN VAL LEU ASP ALA HIS TYR ASP SEQRES 6 B 563 SER VAL LEU GLN ASP VAL LYS ARG ALA ALA SER LYS VAL SEQRES 7 B 563 SER ALA ARG LEU LEU THR VAL GLU GLU ALA CYS ALA LEU SEQRES 8 B 563 THR PRO PRO HIS SER ALA LYS SER ARG TYR GLY PHE GLY SEQRES 9 B 563 ALA LYS GLU VAL ARG SER LEU SER ARG ARG ALA VAL ASN SEQRES 10 B 563 HIS ILE ARG SER VAL TRP GLU ASP LEU LEU GLU ASP GLN SEQRES 11 B 563 HIS THR PRO ILE ASP THR THR ILE MET ALA LYS ASN GLU SEQRES 12 B 563 VAL PHE CYS ILE ASP PRO THR LYS GLY GLY LYS LYS PRO SEQRES 13 B 563 ALA ARG LEU ILE VAL TYR PRO ASP LEU GLY VAL ARG VAL SEQRES 14 B 563 CYS GLU LYS MET ALA LEU TYR ASP ILE ALA GLN LYS LEU SEQRES 15 B 563 PRO LYS ALA ILE MET GLY PRO SER TYR GLY PHE GLN TYR SEQRES 16 B 563 SER PRO ALA GLU ARG VAL ASP PHE LEU LEU LYS ALA TRP SEQRES 17 B 563 GLY SER LYS LYS ASP PRO MET GLY PHE SER TYR ASP THR SEQRES 18 B 563 ARG CYS PHE ASP SER THR VAL THR GLU ARG ASP ILE ARG SEQRES 19 B 563 THR GLU GLU SER ILE TYR GLN ALA CYS SER LEU PRO GLN SEQRES 20 B 563 GLU ALA ARG THR VAL ILE HIS SER LEU THR GLU ARG LEU SEQRES 21 B 563 TYR VAL GLY GLY PRO MET THR ASN SER LYS GLY GLN SER SEQRES 22 B 563 CYS GLY TYR ARG ARG CYS ARG ALA SER GLY VAL PHE THR SEQRES 23 B 563 THR SER MET GLY ASN THR MET THR CYS TYR ILE LYS ALA SEQRES 24 B 563 LEU ALA ALA CYS LYS ALA ALA GLY ILE VAL ASP PRO VAL SEQRES 25 B 563 MET LEU VAL CYS GLY ASP ASP LEU VAL VAL ILE SER GLU SEQRES 26 B 563 SER GLN GLY ASN GLU GLU ASP GLU ARG ASN LEU ARG ALA SEQRES 27 B 563 PHE THR GLU ALA MET THR ARG TYR SER ALA PRO PRO GLY SEQRES 28 B 563 ASP LEU PRO ARG PRO GLU TYR ASP LEU GLU LEU ILE THR SEQRES 29 B 563 SER CYS SER SER ASN VAL SER VAL ALA LEU ASP SER ARG SEQRES 30 B 563 GLY ARG ARG ARG TYR PHE LEU THR ARG ASP PRO THR THR SEQRES 31 B 563 PRO ILE THR ARG ALA ALA TRP GLU THR VAL ARG HIS SER SEQRES 32 B 563 PRO VAL ASN SER TRP LEU GLY ASN ILE ILE GLN TYR ALA SEQRES 33 B 563 PRO THR ILE TRP VAL ARG MET VAL ILE MET THR HIS PHE SEQRES 34 B 563 PHE SER ILE LEU LEU ALA GLN ASP THR LEU ASN GLN ASN SEQRES 35 B 563 LEU ASN PHE GLU MET TYR GLY ALA VAL TYR SER VAL ASN SEQRES 36 B 563 PRO LEU ASP LEU PRO ALA ILE ILE GLU ARG LEU HIS GLY SEQRES 37 B 563 LEU GLU ALA PHE SER LEU HIS THR TYR SER PRO HIS GLU SEQRES 38 B 563 LEU SER ARG VAL ALA ALA THR LEU ARG LYS LEU GLY ALA SEQRES 39 B 563 PRO PRO LEU ARG ALA TRP LYS SER ARG ALA ARG ALA VAL SEQRES 40 B 563 ARG ALA SER LEU ILE ALA GLN GLY ALA ARG ALA ALA ILE SEQRES 41 B 563 CYS GLY ARG TYR LEU PHE ASN TRP ALA VAL LYS THR LYS SEQRES 42 B 563 LEU LYS LEU THR PRO LEU PRO GLU ALA SER ARG LEU ASP SEQRES 43 B 563 LEU SER GLY TRP PHE THR VAL GLY ALA GLY GLY GLY ASP SEQRES 44 B 563 ILE TYR HIS SER FORMUL 3 HOH *825(H2 O) HELIX 1 1 ASN A 24 SER A 29 1 6 HELIX 2 2 PHE A 33 ASN A 35 5 3 HELIX 3 3 THR A 41 ARG A 43 5 3 HELIX 4 4 SER A 44 THR A 53 1 10 HELIX 5 5 ASP A 61 SER A 76 1 16 HELIX 6 6 THR A 84 LEU A 91 1 8 HELIX 7 7 GLY A 104 SER A 110 1 7 HELIX 8 8 SER A 112 ASP A 129 1 18 HELIX 9 9 ASP A 164 GLY A 188 1 25 HELIX 10 10 PRO A 189 TYR A 195 5 7 HELIX 11 11 SER A 196 SER A 210 1 15 HELIX 12 12 CYS A 223 VAL A 228 1 6 HELIX 13 13 THR A 229 CYS A 243 1 15 HELIX 14 14 PRO A 246 LEU A 260 1 15 HELIX 15 15 THR A 286 GLY A 307 1 22 HELIX 16 16 GLY A 328 TYR A 346 1 19 HELIX 17 17 ASP A 359 ILE A 363 5 5 HELIX 18 18 PRO A 388 ARG A 401 1 14 HELIX 19 19 ASN A 406 ALA A 416 1 11 HELIX 20 20 THR A 418 VAL A 424 1 7 HELIX 21 21 VAL A 424 ASP A 437 1 14 HELIX 22 22 ASN A 455 LEU A 457 5 3 HELIX 23 23 ASP A 458 GLY A 468 1 11 HELIX 24 24 LEU A 469 SER A 473 5 5 HELIX 25 25 SER A 478 GLY A 493 1 16 HELIX 26 26 PRO A 496 GLY A 515 1 20 HELIX 27 27 GLY A 515 PHE A 526 1 12 HELIX 28 28 ASN A 527 VAL A 530 5 4 HELIX 29 29 GLU A 541 LEU A 545 5 5 HELIX 30 30 LEU A 547 PHE A 551 5 5 HELIX 31 31 ALA A 555 ASP A 559 5 5 HELIX 32 32 ASN B 24 SER B 29 1 6 HELIX 33 33 PHE B 33 ASN B 35 5 3 HELIX 34 34 THR B 41 ARG B 43 5 3 HELIX 35 35 SER B 44 THR B 53 1 10 HELIX 36 36 ASP B 61 SER B 76 1 16 HELIX 37 37 THR B 84 LEU B 91 1 8 HELIX 38 38 GLY B 104 SER B 110 1 7 HELIX 39 39 SER B 112 ASP B 129 1 18 HELIX 40 40 ASP B 164 GLY B 188 1 25 HELIX 41 41 PRO B 189 TYR B 195 5 7 HELIX 42 42 SER B 196 SER B 210 1 15 HELIX 43 43 CYS B 223 VAL B 228 1 6 HELIX 44 44 THR B 229 CYS B 243 1 15 HELIX 45 45 PRO B 246 LEU B 260 1 15 HELIX 46 46 THR B 286 GLY B 307 1 22 HELIX 47 47 GLY B 328 TYR B 346 1 19 HELIX 48 48 ASP B 359 ILE B 363 5 5 HELIX 49 49 PRO B 388 ARG B 401 1 14 HELIX 50 50 ASN B 406 ALA B 416 1 11 HELIX 51 51 THR B 418 VAL B 424 1 7 HELIX 52 52 VAL B 424 ASP B 437 1 14 HELIX 53 53 ASN B 455 LEU B 457 5 3 HELIX 54 54 ASP B 458 GLY B 468 1 11 HELIX 55 55 LEU B 469 SER B 473 5 5 HELIX 56 56 SER B 478 GLY B 493 1 16 HELIX 57 57 PRO B 496 GLY B 515 1 20 HELIX 58 58 GLY B 515 PHE B 526 1 12 HELIX 59 59 ASN B 527 VAL B 530 5 4 HELIX 60 60 LEU B 539 LEU B 545 1 7 HELIX 61 61 ALA B 555 ASP B 559 5 5 SHEET 1 A 5 TYR A 4 TRP A 6 0 SHEET 2 A 5 SER 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 MET 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 PRO A 163 -1 O TYR A 162 N THR A 137 SHEET 1 B 2 VAL A 37 SER 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 SER A 324 N MET A 215 SHEET 3 C 3 VAL A 312 CYS A 316 -1 N VAL A 312 O ILE A 323 SHEET 1 D 2 SER A 368 LEU A 374 0 SHEET 2 D 2 ARG A 380 ARG A 386 -1 O PHE A 383 N SER A 371 SHEET 1 E 2 LEU A 443 MET A 447 0 SHEET 2 E 2 ALA A 450 VAL A 454 -1 O TYR A 452 N PHE A 445 SHEET 1 F 5 TYR B 4 TRP B 6 0 SHEET 2 F 5 SER 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 MET B 266 O GLY B 275 SHEET 4 F 5 THR B 136 ALA B 140 1 N THR B 136 O THR B 267 SHEET 5 F 5 LEU B 159 TYR B 162 -1 O ILE B 160 N MET B 139 SHEET 1 G 2 VAL B 37 SER 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 SER B 324 N MET B 215 SHEET 3 H 3 VAL B 312 CYS B 316 -1 N VAL B 312 O ILE B 323 SHEET 1 I 2 SER B 368 LEU B 374 0 SHEET 2 I 2 ARG B 380 ARG B 386 -1 O ARG B 381 N ALA B 373 SHEET 1 J 2 LEU B 443 MET B 447 0 SHEET 2 J 2 ALA B 450 VAL B 454 -1 O TYR B 452 N PHE B 445 CRYST1 153.251 64.497 135.583 90.00 90.16 90.00 C 1 2 1 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.006525 0.000000 0.000018 0.00000 SCALE2 0.000000 0.015505 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007376 0.00000