HEADER HYDROLASE 14-JUL-04 1W3C TITLE CRYSTAL STRUCTURE OF THE HEPATITIS C VIRUS NS3 PROTEASE IN COMPLEX TITLE 2 WITH A PEPTIDOMIMETIC INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEASE/HELICASE NS3 (P70); COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: PROTEASE, RESIDUES 305-491; COMPND 5 EC: 3.4.22.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: NONSTRUCTURAL PROTEIN NS4A (P4); COMPND 9 CHAIN: C, D; COMPND 10 FRAGMENT: RESIDUES 956-967; COMPND 11 ENGINEERED: YES; COMPND 12 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HEPATITIS C VIRUS (ISOLATE 1); SOURCE 3 ORGANISM_TAXID: 11104; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 OTHER_DETAILS: EXPRESSED UNDER T7 PROMOTER, IPTG INDUCED; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: HEPATITIS C VIRUS (ISOLATE 1); SOURCE 10 ORGANISM_TAXID: 11104 KEYWDS HYDROLASE, SERINE PROTEASE, HCV, INDOLINE-BASED PEPTIDOMIMETIC KEYWDS 2 INHIBITOR EXPDTA X-RAY DIFFRACTION AUTHOR S.DI MARCO,C.VOLPARI REVDAT 5 13-DEC-23 1W3C 1 COMPND HETNAM LINK REVDAT 4 23-SEP-15 1W3C 1 REVDAT REVDAT 3 16-SEP-15 1W3C 1 SOURCE KEYWDS REVDAT JRNL REVDAT 3 2 1 REMARK VERSN MASTER REVDAT 2 24-FEB-09 1W3C 1 VERSN REVDAT 1 09-DEC-04 1W3C 0 JRNL AUTH J.M.ONTORIA,S.DI MARCO,I.CONTE,M.E.DI FRANCESCO,C.GARDELLI, JRNL AUTH 2 U.KOCH,V.G.MATASSA,M.POMA,C.STEINKUHLER,C.VOLPARI,S.HARPER JRNL TITL THE DESIGN AND ENZYME-BOUND CRYSTAL STRUCTURE OF INDOLINE JRNL TITL 2 BASED PEPTIDOMIMETIC INHIBITORS OF HEPATITIS C VIRUS NS3 JRNL TITL 3 PROTEASE JRNL REF J.MED.CHEM. V. 47 6443 2004 JRNL REFN ISSN 0022-2623 JRNL PMID 15588076 JRNL DOI 10.1021/JM049435D REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.DI MARCO,M.RIZZI,C.VOLPARI,M.WALSH,F.NARJES,S.COLARUSSO, REMARK 1 AUTH 2 R.DE FRANCESCO,V.G.MATASSA,M.SOLLAZZO REMARK 1 TITL INHIBITION OF THE HEPATITIS C VIRUS NS3-4A PROTEASE. THE REMARK 1 TITL 2 CRYSTAL STRUCTURES OF TWO PROTEASE- INHIBITOR COMPLEXES REMARK 1 REF J.BIOL.CHEM. V. 275 7152 2000 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 10702283 REMARK 1 DOI 10.1074/JBC.275.10.7152 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.5 REMARK 3 NUMBER OF REFLECTIONS : 15517 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2714 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 78 REMARK 3 SOLVENT ATOMS : 196 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.15 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL 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 : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 1W3C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-JUL-04. REMARK 100 THE DEPOSITION ID IS D_1290020390. 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 : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 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 : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16243 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 200 DATA REDUNDANCY : 2.770 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.20000 REMARK 200 R SYM FOR SHELL (I) : NULL 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: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1DXP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 26.66900 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 53.33800 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 40.00350 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 66.67250 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 13.33450 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED MUTATION IN CHAINS C, D THR 955 TO LYS REMARK 400 ENGINEERED MUTATION IN CHAINS C, D PRO 970 TO LYS 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 ALA A 1 REMARK 465 PRO A 2 REMARK 465 THR A 177 REMARK 465 THR A 178 REMARK 465 MET A 179 REMARK 465 ARG A 180 REMARK 465 SER A 181 REMARK 465 PRO A 182 REMARK 465 VAL A 183 REMARK 465 PHE A 184 REMARK 465 THR A 185 REMARK 465 ASP A 186 REMARK 465 ASN A 187 REMARK 465 ALA B 1 REMARK 465 PRO B 2 REMARK 465 THR B 177 REMARK 465 THR B 178 REMARK 465 MET B 179 REMARK 465 ARG B 180 REMARK 465 SER B 181 REMARK 465 PRO B 182 REMARK 465 VAL B 183 REMARK 465 PHE B 184 REMARK 465 THR B 185 REMARK 465 ASP B 186 REMARK 465 ASN B 187 REMARK 465 LYS C 220 REMARK 465 ARG C 234 REMARK 465 LYS C 235 REMARK 465 LYS D 220 REMARK 465 ARG D 234 REMARK 465 LYS D 235 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 176 CA C O CB CG CD OE1 REMARK 470 GLU A 176 OE2 REMARK 470 GLU B 176 CA C O CB CG CD OE1 REMARK 470 GLU B 176 OE2 REMARK 470 GLY C 233 CA C O REMARK 470 GLY D 233 CA C O 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 OG SER A 42 NH2 ARG A 109 2.03 REMARK 500 OG SER B 42 NH2 ARG B 109 2.09 REMARK 500 OD1 ASN A 77 NE2 GLN A 80 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NH2 ARG A 24 NH2 ARG B 24 4654 1.84 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 ARG A 24 NE - CZ - NH1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG A 24 NE - CZ - NH2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ASP A 30 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 GLN A 80 CA - CB - CG ANGL. DEV. = 15.3 DEGREES REMARK 500 ARG A 109 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 109 NE - CZ - NH2 ANGL. DEV. = -4.9 DEGREES REMARK 500 ARG A 117 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 HIS B 57 CA - CB - CG ANGL. DEV. = 10.8 DEGREES REMARK 500 ARG B 109 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG B 109 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG B 119 CG - CD - NE ANGL. DEV. = 14.6 DEGREES REMARK 500 ARG B 119 CD - NE - CZ ANGL. DEV. = 13.1 DEGREES REMARK 500 ARG B 161 CD - NE - CZ ANGL. DEV. = 10.8 DEGREES REMARK 500 ARG C 228 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG D 228 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG D 228 NE - CZ - NH2 ANGL. DEV. = -3.3 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 -165.32 -109.13 REMARK 500 PRO A 86 120.33 -39.65 REMARK 500 THR A 98 -17.68 -176.31 REMARK 500 SER A 122 35.34 -148.31 REMARK 500 THR B 38 -160.22 -111.18 REMARK 500 PRO B 89 125.85 -39.26 REMARK 500 SER D 232 -38.12 -132.11 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 B2009 DISTANCE = 6.52 ANGSTROMS REMARK 525 HOH B2010 DISTANCE = 6.96 ANGSTROMS REMARK 525 HOH B2015 DISTANCE = 8.17 ANGSTROMS REMARK 525 HOH B2018 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH B2040 DISTANCE = 6.29 ANGSTROMS REMARK 700 REMARK 700 SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "AB" REMARK 700 AND "BB" IN EACH CHAIN ON SHEET RECORDS BELOW ARE ACTUALLY 6- REMARK 700 STRANDED BARRELS REPRESENTED BY A 7-STRANDED SHEET IN WHICH THE REMARK 700 FIRST AND LAST STRANDS ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: Binding site for Ligand DN1 A1176 bound to SER A REMARK 800 139 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: Binding site for Ligand DN2 B1176 bound to SER B REMARK 800 139 REMARK 999 REMARK 999 SEQUENCE REMARK 999 ENGINEERED MUTATIONS IN CHAINS C AND D WERE INTRODUCED TO REMARK 999 INCREASE THE SOLUBILITY OF THE PEPTIDE DBREF 1W3C A 1 187 UNP Q81755 Q81755 305 491 DBREF 1W3C B 1 187 UNP Q81755 Q81755 305 491 DBREF 1W3C C 220 235 UNP Q81755 Q81755 955 970 DBREF 1W3C D 220 235 UNP Q81755 Q81755 955 970 SEQADV 1W3C LYS C 220 UNP Q81755 THR 955 ENGINEERED MUTATION SEQADV 1W3C LYS C 235 UNP Q81755 PRO 970 ENGINEERED MUTATION SEQADV 1W3C LYS D 220 UNP Q81755 THR 955 ENGINEERED MUTATION SEQADV 1W3C LYS D 235 UNP Q81755 PRO 970 ENGINEERED MUTATION SEQRES 1 A 187 ALA PRO ILE THR ALA TYR SER GLN GLN THR ARG GLY LEU SEQRES 2 A 187 LEU GLY CYS ILE ILE THR SER LEU THR GLY ARG ASP LYS SEQRES 3 A 187 ASN GLN VAL ASP GLY GLU VAL GLN VAL LEU SER THR ALA SEQRES 4 A 187 THR GLN SER PHE LEU ALA THR CYS VAL ASN GLY VAL CYS SEQRES 5 A 187 TRP THR VAL TYR HIS GLY ALA GLY SER LYS THR LEU ALA SEQRES 6 A 187 GLY PRO LYS GLY PRO ILE THR GLN MET TYR THR ASN VAL SEQRES 7 A 187 ASP GLN ASP LEU VAL GLY TRP PRO ALA PRO PRO GLY ALA SEQRES 8 A 187 ARG SER MET THR PRO CYS THR CYS GLY SER SER ASP LEU SEQRES 9 A 187 TYR LEU VAL THR ARG HIS ALA ASP VAL ILE PRO VAL ARG SEQRES 10 A 187 ARG ARG GLY ASP SER ARG GLY SER LEU LEU SER PRO ARG SEQRES 11 A 187 PRO VAL SER TYR LEU LYS GLY SER SER GLY GLY PRO LEU SEQRES 12 A 187 LEU CYS PRO SER GLY HIS VAL VAL GLY ILE PHE ARG ALA SEQRES 13 A 187 ALA VAL CYS THR ARG GLY VAL ALA LYS ALA VAL ASP PHE SEQRES 14 A 187 ILE PRO VAL GLU SER MET GLU THR THR MET ARG SER PRO SEQRES 15 A 187 VAL PHE THR ASP ASN SEQRES 1 B 187 ALA PRO ILE THR ALA TYR SER GLN GLN THR ARG GLY LEU SEQRES 2 B 187 LEU GLY CYS ILE ILE THR SER LEU THR GLY ARG ASP LYS SEQRES 3 B 187 ASN GLN VAL ASP GLY GLU VAL GLN VAL LEU SER THR ALA SEQRES 4 B 187 THR GLN SER PHE LEU ALA THR CYS VAL ASN GLY VAL CYS SEQRES 5 B 187 TRP THR VAL TYR HIS GLY ALA GLY SER LYS THR LEU ALA SEQRES 6 B 187 GLY PRO LYS GLY PRO ILE THR GLN MET TYR THR ASN VAL SEQRES 7 B 187 ASP GLN ASP LEU VAL GLY TRP PRO ALA PRO PRO GLY ALA SEQRES 8 B 187 ARG SER MET THR PRO CYS THR CYS GLY SER SER ASP LEU SEQRES 9 B 187 TYR LEU VAL THR ARG HIS ALA ASP VAL ILE PRO VAL ARG SEQRES 10 B 187 ARG ARG GLY ASP SER ARG GLY SER LEU LEU SER PRO ARG SEQRES 11 B 187 PRO VAL SER TYR LEU LYS GLY SER SER GLY GLY PRO LEU SEQRES 12 B 187 LEU CYS PRO SER GLY HIS VAL VAL GLY ILE PHE ARG ALA SEQRES 13 B 187 ALA VAL CYS THR ARG GLY VAL ALA LYS ALA VAL ASP PHE SEQRES 14 B 187 ILE PRO VAL GLU SER MET GLU THR THR MET ARG SER PRO SEQRES 15 B 187 VAL PHE THR ASP ASN SEQRES 1 C 16 LYS GLY SER VAL VAL ILE VAL GLY ARG ILE ILE LEU SER SEQRES 2 C 16 GLY ARG LYS SEQRES 1 D 16 LYS GLY SER VAL VAL ILE VAL GLY ARG ILE ILE LEU SER SEQRES 2 D 16 GLY ARG LYS HET DN1 A1176 39 HET DN2 B1176 39 HETNAM DN1 3-({(2S)-2-[({(1R)-1-[({(1R)-1-[(R)-CARBOXY(HYDROXY) HETNAM 2 DN1 METHYL]-3,3-DIFLUOROPROPYL}AMINO)CARBONYL]-3- HETNAM 3 DN1 METHYLBUTYL}AMINO)CARB ONYL]-2,3-DIHYDRO-1H-INDOL-2- HETNAM 4 DN1 YL}METHYL)THIOPHENE-2-CARBOXYLIC ACID HETNAM DN2 3-({(2S)-2-[({(1S)-1-[({(1S)-1-[(R)-CARBOXY(HYDROXY) HETNAM 2 DN2 METHYL]-3,3-DIFLUOROPROPYL}AMINO)CARBONYL]-3- HETNAM 3 DN2 METHYLBUTYL}AMINO)CARBONYL]-2,3-DIHYDRO-1H-INDOL-2- HETNAM 4 DN2 YL}METHYL)THIOPHENE-2-CARBOXYLIC ACID HETSYN DN1 PEPTIDOMIMETIC INHIBITOR HETSYN DN2 PEPTIDOMIMETIC INHIBITOR FORMUL 5 DN1 C26 H31 F2 N3 O7 S FORMUL 6 DN2 C26 H31 F2 N3 O7 S FORMUL 7 HOH *196(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 SER A 133 LEU A 135 5 3 HELIX 4 4 GLU A 173 MET A 175 5 3 HELIX 5 5 GLY B 12 GLY B 23 1 12 HELIX 6 6 TYR B 56 GLY B 60 1 5 HELIX 7 7 SER B 133 LYS B 136 5 4 HELIX 8 8 GLU B 173 MET B 175 5 3 SHEET 1 AA 7 THR A 4 GLN A 9 0 SHEET 2 AA 7 VAL C 224 SER C 232 -1 O ARG C 228 N GLN A 8 SHEET 3 AA 7 VAL A 33 SER A 37 -1 O VAL A 33 N ILE C 229 SHEET 4 AA 7 SER A 42 VAL A 48 -1 O PHE A 43 N LEU A 36 SHEET 5 AA 7 VAL A 51 VAL A 55 -1 O VAL A 51 N VAL A 48 SHEET 6 AA 7 LEU A 82 PRO A 86 -1 O VAL A 83 N THR A 54 SHEET 7 AA 7 TYR A 75 ASN A 77 -1 O TYR A 75 N GLY A 84 SHEET 1 AB 7 ASP A 103 VAL A 107 0 SHEET 2 AB 7 VAL A 113 GLY A 120 -1 O ILE A 114 N LEU A 106 SHEET 3 AB 7 ARG A 123 PRO A 131 -1 O ARG A 123 N ARG A 119 SHEET 4 AB 7 VAL A 163 PRO A 171 -1 O ALA A 164 N ARG A 130 SHEET 5 AB 7 VAL A 150 THR A 160 -1 O ILE A 153 N ILE A 170 SHEET 6 AB 7 PRO A 142 LEU A 144 -1 O LEU A 143 N VAL A 151 SHEET 7 AB 7 ASP A 103 VAL A 107 -1 O TYR A 105 N LEU A 144 SHEET 1 BA 7 ALA B 5 GLN B 9 0 SHEET 2 BA 7 VAL D 224 LEU D 231 -1 O ARG D 228 N GLN B 8 SHEET 3 BA 7 VAL B 33 SER B 37 -1 O VAL B 33 N ILE D 229 SHEET 4 BA 7 SER B 42 VAL B 48 -1 O PHE B 43 N LEU B 36 SHEET 5 BA 7 VAL B 51 VAL B 55 -1 O VAL B 51 N VAL B 48 SHEET 6 BA 7 LEU B 82 PRO B 86 -1 O VAL B 83 N THR B 54 SHEET 7 BA 7 TYR B 75 ASN B 77 -1 O TYR B 75 N GLY B 84 SHEET 1 BB 7 ASP B 103 VAL B 107 0 SHEET 2 BB 7 VAL B 113 ARG B 118 -1 O ILE B 114 N LEU B 106 SHEET 3 BB 7 ARG B 123 PRO B 131 -1 O SER B 125 N ARG B 117 SHEET 4 BB 7 VAL B 163 PRO B 171 -1 O ALA B 164 N ARG B 130 SHEET 5 BB 7 VAL B 150 THR B 160 -1 O ILE B 153 N ILE B 170 SHEET 6 BB 7 PRO B 142 LEU B 144 -1 O LEU B 143 N VAL B 151 SHEET 7 BB 7 ASP B 103 VAL B 107 -1 O TYR B 105 N LEU B 144 SSBOND 1 CYS A 47 CYS A 52 1555 1555 2.99 SSBOND 2 CYS A 97 CYS A 145 1555 1555 2.96 SSBOND 3 CYS B 97 CYS B 99 1555 1555 2.91 LINK OG SER A 139 C17 DN1 A1176 1555 1555 1.42 LINK OG SER B 139 C17 DN2 B1176 1555 1555 1.44 SITE 1 AC1 10 HIS A 57 LYS A 136 GLY A 137 SER A 138 SITE 2 AC1 10 SER A 139 PHE A 154 ARG A 155 ALA A 156 SITE 3 AC1 10 ALA A 157 CYS A 159 SITE 1 AC2 10 HIS B 57 LEU B 135 LYS B 136 GLY B 137 SITE 2 AC2 10 SER B 138 SER B 139 ARG B 155 ALA B 156 SITE 3 AC2 10 ALA B 157 HOH B2087 CRYST1 92.411 92.411 80.007 90.00 90.00 120.00 P 61 12 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 0.010820 0.006250 0.000000 0.00000 SCALE2 0.000000 0.012500 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012500 0.00000