HEADER VIRAL PROTEIN COMPLEX 10-DEC-03 1RTL TITLE CRYSTAL STRUCTURE OF HCV NS3 PROTEASE DOMAIN: NS4A PEPTIDE COMPLEX TITLE 2 WITH COVALENTLY BOUND PYRROLIDINE-5,5-TRANSLACTAM INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: NS3 PROTEASE/HELICASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: PROTEASE DOMAIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: NS4A COFACTOR; COMPND 8 CHAIN: C, D; COMPND 9 FRAGMENT: RESIDUES 21-39; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HEPATITIS C VIRUS; SOURCE 3 ORGANISM_TAXID: 11103; SOURCE 4 GENE: H STRAIN; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE SOURCE 11 OF THE PROTEIN IS NATURALLY FOUND IN HEPATITIS C VIRUS TYPE 1B. KEYWDS VIRAL PROTEIN, SERINE PROTEASE, NONSTRUCTURAL PROTEIN, COFACTOR KEYWDS 2 PEPTIDE, HELICASE, INHIBITOR, TRANSLACTAM, VIRAL PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.SKARZYNSKI,D.O.N.SOMERS REVDAT 3 27-OCT-21 1RTL 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1RTL 1 VERSN REVDAT 1 14-DEC-04 1RTL 0 JRNL AUTH M.J.SLATER,E.M.AMPHLETT,D.M.ANDREWS,P.BAMBOROUGH,S.J.CAREY, JRNL AUTH 2 M.R.JOHNSON,P.S.JONES,G.MILLS,N.R.PARRY,D.O.SOMERS, JRNL AUTH 3 A.J.STEWART,T.SKARZYNSKI JRNL TITL PYRROLIDINE-5,5-TRANS-LACTAMS. 4. INCORPORATION OF A P3/P4 JRNL TITL 2 UREA LEADS TO POTENT INTRACELLULAR INHIBITORS OF HEPATITIS C JRNL TITL 3 VIRUS NS3/4A PROTEASE JRNL REF ORG.LETT. V. 5 4627 2003 JRNL REFN ISSN 1523-7060 JRNL PMID 14627400 JRNL DOI 10.1021/OL035826V REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.M.ANDREWS,H.CHAIGNOT,B.A.COOMBER,A.C.GOOD,S.L.HIND, REMARK 1 AUTH 2 M.R.JOHNSON,P.S.JONES,G.MILLS,J.E.ROBINSON,T.SKARZYNSKI, REMARK 1 AUTH 3 M.J.SLATER,D.O.SOMERS REMARK 1 TITL PYRROLIDINE-5,5-TRANS-LACTAMS. 2. THE USE OF X-RAY CRYSTAL REMARK 1 TITL 2 STRUCTURE DATA IN THE OPTIMISATION OF P3 AND P4 SUBSTITUENTS REMARK 1 REF ORG.LETT. V. 4 4479 2002 REMARK 1 REFN ISSN 1523-7060 REMARK 1 DOI 10.1021/OL027014P REMARK 2 REMARK 2 RESOLUTION. 2.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.27 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) : 2.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 17776 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 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 : 960 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) : 2.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1234 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE SET COUNT : 91 REMARK 3 BIN FREE R VALUE : 0.4050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2732 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 102 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 63.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.33 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.97000 REMARK 3 B22 (A**2) : -0.97000 REMARK 3 B33 (A**2) : 1.46000 REMARK 3 B12 (A**2) : -0.49000 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): 0.339 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.263 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.915 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2824 ; 0.021 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3849 ; 2.164 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 366 ; 5.456 ; 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): 462 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2073 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1258 ; 0.252 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 167 ; 0.178 ; 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): 43 ; 0.276 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.129 ; 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): 1831 ; 1.910 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2973 ; 3.855 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 993 ; 6.522 ; 7.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 872 ;10.166 ;11.000 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: NULL REMARK 4 REMARK 4 1RTL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-DEC-03. REMARK 100 THE DEPOSITION ID IS D_1000021026. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : OSMIC MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18742 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.750 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.52800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15MM MES, 0.5M NACL, 20MM BME, PH 6.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 112.04100 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.68690 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 25.23133 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 112.04100 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 64.68690 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 25.23133 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 112.04100 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 64.68690 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 25.23133 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 112.04100 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 64.68690 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 25.23133 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 112.04100 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 64.68690 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 25.23133 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 112.04100 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 64.68690 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 25.23133 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 129.37380 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 50.46267 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 129.37380 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 50.46267 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 129.37380 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 50.46267 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 129.37380 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 50.46267 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 129.37380 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 50.46267 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 129.37380 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 50.46267 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -122.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 MET A -10 REMARK 465 ALA A -9 REMARK 465 SER A -8 REMARK 465 MET A -7 REMARK 465 THR A -6 REMARK 465 GLY A -5 REMARK 465 GLY A -4 REMARK 465 GLN A -3 REMARK 465 GLN A -2 REMARK 465 MET A -1 REMARK 465 GLY A 0 REMARK 465 SER A 181 REMARK 465 GLY A 182 REMARK 465 SER A 183 REMARK 465 HIS A 184 REMARK 465 HIS A 185 REMARK 465 HIS A 186 REMARK 465 HIS A 187 REMARK 465 HIS A 188 REMARK 465 HIS A 189 REMARK 465 MET B -10 REMARK 465 ALA B -9 REMARK 465 SER B -8 REMARK 465 MET B -7 REMARK 465 THR B -6 REMARK 465 GLY B -5 REMARK 465 GLY B -4 REMARK 465 GLN B -3 REMARK 465 GLN B -2 REMARK 465 MET B -1 REMARK 465 GLY B 0 REMARK 465 ALA B 1 REMARK 465 PRO B 2 REMARK 465 ILE B 3 REMARK 465 THR B 4 REMARK 465 ALA B 5 REMARK 465 TYR B 6 REMARK 465 ALA B 7 REMARK 465 GLN B 8 REMARK 465 GLN B 9 REMARK 465 THR B 10 REMARK 465 ARG B 11 REMARK 465 GLY B 12 REMARK 465 LEU B 13 REMARK 465 LEU B 14 REMARK 465 GLY B 15 REMARK 465 CYS B 16 REMARK 465 ILE B 17 REMARK 465 ILE B 18 REMARK 465 THR B 19 REMARK 465 SER B 20 REMARK 465 LEU B 21 REMARK 465 THR B 22 REMARK 465 GLY B 23 REMARK 465 ARG B 24 REMARK 465 ASP B 25 REMARK 465 LYS B 26 REMARK 465 ASN B 27 REMARK 465 SER B 181 REMARK 465 GLY B 182 REMARK 465 SER B 183 REMARK 465 HIS B 184 REMARK 465 HIS B 185 REMARK 465 HIS B 186 REMARK 465 HIS B 187 REMARK 465 HIS B 188 REMARK 465 HIS B 189 REMARK 465 LYS C 19 REMARK 465 LYS C 41 REMARK 465 LYS D 19 REMARK 465 LYS D 20 REMARK 465 ILE D 37 REMARK 465 ILE D 38 REMARK 465 PRO D 39 REMARK 465 LYS D 40 REMARK 465 LYS D 41 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 ARG A 109 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 118 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 118 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ASP B 79 CB - CG - OD2 ANGL. DEV. = 6.7 DEGREES REMARK 500 ASP B 81 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG B 92 NE - CZ - NH1 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 THR A 38 -156.00 -116.89 REMARK 500 ARG A 119 36.99 -145.13 REMARK 500 SER A 122 15.07 -143.44 REMARK 500 PRO A 129 154.32 -47.85 REMARK 500 THR B 40 -63.30 -98.80 REMARK 500 PHE B 43 -157.78 -155.23 REMARK 500 ARG B 119 -65.50 -98.74 REMARK 500 SER B 128 98.07 -176.47 REMARK 500 ARG B 161 72.92 47.67 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 A 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 97 SG REMARK 620 2 CYS A 99 SG 98.8 REMARK 620 3 CYS A 145 SG 103.1 99.9 REMARK 620 4 HOH A 307 O 122.0 116.0 113.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 97 SG REMARK 620 2 CYS B 99 SG 95.6 REMARK 620 3 CYS B 145 SG 106.8 115.1 REMARK 620 4 HOH B 305 O 111.1 103.8 121.5 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 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CPX A 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1N1L RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HCV NS3 PROTEASE DOMAIN: NS4A PEPTIDE COMPLEX REMARK 900 WITH COVALENTLY BOUND INHIBITOR (GW472467X) DBREF 1RTL A 1 181 UNP Q91RS4 Q91RS4_9HEPC 1 181 DBREF 1RTL B 1 181 UNP Q91RS4 Q91RS4_9HEPC 1 181 DBREF 1RTL C 21 39 GB 5748511 CAB53095 1678 1696 DBREF 1RTL D 21 39 GB 5748511 CAB53095 1678 1696 SEQADV 1RTL MET A -10 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL ALA A -9 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL SER A -8 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL MET A -7 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL THR A -6 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL GLY A -5 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL GLY A -4 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL GLN A -3 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL GLN A -2 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL MET A -1 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL GLY A 0 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL THR A 164 UNP Q91RS4 ALA 164 ENGINEERED MUTATION SEQADV 1RTL GLY A 182 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL SER A 183 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS A 184 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS A 185 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS A 186 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS A 187 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS A 188 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS A 189 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL MET B -10 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL ALA B -9 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL SER B -8 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL MET B -7 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL THR B -6 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL GLY B -5 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL GLY B -4 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL GLN B -3 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL GLN B -2 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL MET B -1 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL GLY B 0 UNP Q91RS4 CLONING ARTIFACT SEQADV 1RTL THR B 164 UNP Q91RS4 ALA 164 ENGINEERED MUTATION SEQADV 1RTL GLY B 182 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL SER B 183 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS B 184 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS B 185 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS B 186 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS B 187 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS B 188 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL HIS B 189 UNP Q91RS4 EXPRESSION TAG SEQADV 1RTL LYS C 19 GB 5748511 CLONING ARTIFACT SEQADV 1RTL LYS C 20 GB 5748511 CLONING ARTIFACT SEQADV 1RTL LYS C 40 GB 5748511 CLONING ARTIFACT SEQADV 1RTL LYS C 41 GB 5748511 CLONING ARTIFACT SEQADV 1RTL LYS D 19 GB 5748511 CLONING ARTIFACT SEQADV 1RTL LYS D 20 GB 5748511 CLONING ARTIFACT SEQADV 1RTL LYS D 40 GB 5748511 CLONING ARTIFACT SEQADV 1RTL LYS D 41 GB 5748511 CLONING ARTIFACT SEQRES 1 A 200 MET ALA SER MET THR GLY GLY GLN GLN MET GLY ALA PRO SEQRES 2 A 200 ILE THR ALA TYR ALA GLN GLN THR ARG GLY LEU LEU GLY SEQRES 3 A 200 CYS ILE ILE THR SER LEU THR GLY ARG ASP LYS ASN GLN SEQRES 4 A 200 VAL GLU GLY GLU VAL GLN ILE VAL SER THR ALA THR GLN SEQRES 5 A 200 THR PHE LEU ALA THR CYS ILE ASN GLY VAL CYS TRP THR SEQRES 6 A 200 VAL TYR HIS GLY ALA GLY THR ARG THR ILE ALA SER PRO SEQRES 7 A 200 LYS GLY PRO VAL ILE GLN MET TYR THR ASN VAL ASP GLN SEQRES 8 A 200 ASP LEU VAL GLY TRP PRO ALA PRO GLN GLY SER ARG SER SEQRES 9 A 200 LEU THR PRO CYS THR CYS GLY SER SER ASP LEU TYR LEU SEQRES 10 A 200 VAL THR ARG HIS ALA ASP VAL ILE PRO VAL ARG ARG ARG SEQRES 11 A 200 GLY ASP SER ARG GLY SER LEU LEU SER PRO ARG PRO ILE SEQRES 12 A 200 SER TYR LEU LYS GLY SER SER GLY GLY PRO LEU LEU CYS SEQRES 13 A 200 PRO ALA GLY HIS ALA VAL GLY LEU PHE ARG ALA ALA VAL SEQRES 14 A 200 CYS THR ARG GLY VAL THR LYS ALA VAL ASP PHE ILE PRO SEQRES 15 A 200 VAL GLU ASN LEU GLU THR THR MET ARG SER GLY SER HIS SEQRES 16 A 200 HIS HIS HIS HIS HIS SEQRES 1 B 200 MET ALA SER MET THR GLY GLY GLN GLN MET GLY ALA PRO SEQRES 2 B 200 ILE THR ALA TYR ALA GLN GLN THR ARG GLY LEU LEU GLY SEQRES 3 B 200 CYS ILE ILE THR SER LEU THR GLY ARG ASP LYS ASN GLN SEQRES 4 B 200 VAL GLU GLY GLU VAL GLN ILE VAL SER THR ALA THR GLN SEQRES 5 B 200 THR PHE LEU ALA THR CYS ILE ASN GLY VAL CYS TRP THR SEQRES 6 B 200 VAL TYR HIS GLY ALA GLY THR ARG THR ILE ALA SER PRO SEQRES 7 B 200 LYS GLY PRO VAL ILE GLN MET TYR THR ASN VAL ASP GLN SEQRES 8 B 200 ASP LEU VAL GLY TRP PRO ALA PRO GLN GLY SER ARG SER SEQRES 9 B 200 LEU THR PRO CYS THR CYS GLY SER SER ASP LEU TYR LEU SEQRES 10 B 200 VAL THR ARG HIS ALA ASP VAL ILE PRO VAL ARG ARG ARG SEQRES 11 B 200 GLY ASP SER ARG GLY SER LEU LEU SER PRO ARG PRO ILE SEQRES 12 B 200 SER TYR LEU LYS GLY SER SER GLY GLY PRO LEU LEU CYS SEQRES 13 B 200 PRO ALA GLY HIS ALA VAL GLY LEU PHE ARG ALA ALA VAL SEQRES 14 B 200 CYS THR ARG GLY VAL THR LYS ALA VAL ASP PHE ILE PRO SEQRES 15 B 200 VAL GLU ASN LEU GLU THR THR MET ARG SER GLY SER HIS SEQRES 16 B 200 HIS HIS HIS HIS HIS SEQRES 1 C 23 LYS LYS GLY SER VAL VAL ILE VAL GLY ARG ILE VAL LEU SEQRES 2 C 23 SER GLY LYS PRO ALA ILE ILE PRO LYS LYS SEQRES 1 D 23 LYS LYS GLY SER VAL VAL ILE VAL GLY ARG ILE VAL LEU SEQRES 2 D 23 SER GLY LYS PRO ALA ILE ILE PRO LYS LYS HET ZN A 301 1 HET CPX A 201 32 HET ZN B 301 1 HETNAM ZN ZINC ION HETNAM CPX N-[(2R,3S)-1-((2S)-2-{[(CYCLOPENTYLAMINO) HETNAM 2 CPX CARBONYL]AMINO}-3-METHYLBUTANOYL)-2-(1-FORMYL-1- HETNAM 3 CPX CYCLOBUTYL)PYRROLIDINYL]CYCLOPROPANECARBOXAMIDE FORMUL 5 ZN 2(ZN 2+) FORMUL 6 CPX C24 H38 N4 O4 FORMUL 8 HOH *102(H2 O) HELIX 1 1 GLY A 12 GLY A 23 1 12 HELIX 2 2 TYR A 56 GLY A 60 1 5 HELIX 3 3 ILE A 132 LYS A 136 1 5 HELIX 4 4 VAL A 172 ARG A 180 1 9 HELIX 5 5 TYR B 56 GLY B 60 1 5 HELIX 6 6 ILE B 132 LYS B 136 1 5 HELIX 7 7 VAL B 172 MET B 179 1 8 SHEET 1 A 7 TYR A 6 GLN A 9 0 SHEET 2 A 7 VAL C 24 VAL C 30 -1 O VAL C 30 N TYR A 6 SHEET 3 A 7 VAL A 33 SER A 37 -1 N ILE A 35 O GLY C 27 SHEET 4 A 7 THR A 42 ILE A 48 -1 O ALA A 45 N GLN A 34 SHEET 5 A 7 VAL A 51 VAL A 55 -1 O TRP A 53 N THR A 46 SHEET 6 A 7 LEU A 82 PRO A 86 -1 O TRP A 85 N CYS A 52 SHEET 7 A 7 TYR A 75 ASN A 77 -1 N ASN A 77 O LEU A 82 SHEET 1 B 7 ASP A 103 VAL A 107 0 SHEET 2 B 7 VAL A 113 ARG A 118 -1 O ILE A 114 N LEU A 106 SHEET 3 B 7 ARG A 123 PRO A 131 -1 O SER A 125 N ARG A 117 SHEET 4 B 7 VAL A 163 PRO A 171 -1 O THR A 164 N ARG A 130 SHEET 5 B 7 ALA A 150 THR A 160 -1 N ALA A 156 O ASP A 168 SHEET 6 B 7 PRO A 142 LEU A 144 -1 N LEU A 143 O VAL A 151 SHEET 7 B 7 ASP A 103 VAL A 107 -1 N TYR A 105 O LEU A 144 SHEET 1 C 7 TYR B 75 ASN B 77 0 SHEET 2 C 7 LEU B 82 PRO B 86 -1 O LEU B 82 N ASN B 77 SHEET 3 C 7 VAL B 51 VAL B 55 -1 N CYS B 52 O TRP B 85 SHEET 4 C 7 THR B 42 ILE B 48 -1 N THR B 46 O TRP B 53 SHEET 5 C 7 VAL B 33 SER B 37 -1 N GLN B 34 O ALA B 45 SHEET 6 C 7 VAL D 24 VAL D 30 -1 O VAL D 26 N ILE B 35 SHEET 7 C 7 ALA C 36 ILE C 37 -1 N ALA C 36 O VAL D 30 SHEET 1 D 7 ASP B 103 VAL B 107 0 SHEET 2 D 7 VAL B 113 GLY B 120 -1 O ILE B 114 N LEU B 106 SHEET 3 D 7 ARG B 123 PRO B 131 -1 O SER B 125 N ARG B 117 SHEET 4 D 7 VAL B 163 PRO B 171 -1 O THR B 164 N ARG B 130 SHEET 5 D 7 ALA B 150 THR B 160 -1 N ALA B 156 O ASP B 168 SHEET 6 D 7 PRO B 142 LEU B 144 -1 N LEU B 143 O VAL B 151 SHEET 7 D 7 ASP B 103 VAL B 107 -1 N TYR B 105 O LEU B 144 LINK OG SER A 139 C24 CPX A 201 1555 1555 1.40 LINK SG CYS A 97 ZN ZN A 301 1555 1555 2.33 LINK SG CYS A 99 ZN ZN A 301 1555 1555 2.37 LINK SG CYS A 145 ZN ZN A 301 1555 1555 2.38 LINK ZN ZN A 301 O HOH A 307 1555 1555 2.16 LINK SG CYS B 97 ZN ZN B 301 1555 1555 2.35 LINK SG CYS B 99 ZN ZN B 301 1555 1555 2.31 LINK SG CYS B 145 ZN ZN B 301 1555 1555 2.30 LINK ZN ZN B 301 O HOH B 305 1555 1555 2.33 SITE 1 AC1 4 CYS A 97 CYS A 99 CYS A 145 HOH A 307 SITE 1 AC2 4 CYS B 97 CYS B 99 CYS B 145 HOH B 305 SITE 1 AC3 10 GLN A 41 HIS A 57 GLY A 58 ILE A 132 SITE 2 AC3 10 SER A 139 PHE A 154 ALA A 156 ALA A 157 SITE 3 AC3 10 ASP A 168 HOH A 329 CRYST1 224.082 224.082 75.694 90.00 90.00 120.00 H 3 2 36 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 0.004463 0.002577 0.000000 0.00000 SCALE2 0.000000 0.005153 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013211 0.00000