HEADER HYDROLASE/HYDROLASE INHIBITOR 01-JUL-10 3NS7 TITLE SUCCINIC ACID AMIDES AS P2-P3 REPLACEMENTS FOR INHIBITORS OF TITLE 2 INTERLEUKIN-1BETA CONVERTING ENZYME (ICE OR CASPASE 1) CAVEAT 3NS7 STRUCTURE FACTOR VALIDATION DOES NOT YIELD GOOD AGREEMENT CAVEAT 2 3NS7 BETWEEN THE REPORTED AND CALCULATED R VALUES, SEE REMARK 3. COMPND MOL_ID: 1; COMPND 2 MOLECULE: CASPASE-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 136-297; COMPND 5 SYNONYM: CASP-1, INTERLEUKIN-1 BETA CONVERTASE, IL-1BC, INTERLEUKIN-1 COMPND 6 BETA-CONVERTING ENZYME, IL-1 BETA-CONVERTING ENZYME, ICE, P45, COMPND 7 CASPASE-1 SUBUNIT P20, CASPASE-1 SUBUNIT P10; COMPND 8 EC: 3.4.22.36; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: CASPASE-1; COMPND 12 CHAIN: B; COMPND 13 FRAGMENT: UNP RESIDUES 317-404; COMPND 14 SYNONYM: CASP-1, INTERLEUKIN-1 BETA CONVERTASE, IL-1BC, INTERLEUKIN-1 COMPND 15 BETA-CONVERTING ENZYME, IL-1 BETA-CONVERTING ENZYME, ICE, P45, COMPND 16 CASPASE-1 SUBUNIT P20, CASPASE-1 SUBUNIT P10; COMPND 17 EC: 3.4.22.36; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CASP1, IL1BC, IL1BCE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PACYC177; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: CASP1, IL1BC, IL1BCE; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PACYC177 KEYWDS CYSTEINE PROTEASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.GALATSIS REVDAT 3 27-DEC-23 3NS7 1 REMARK LINK REVDAT 2 08-NOV-17 3NS7 1 REMARK REVDAT 1 17-AUG-11 3NS7 0 JRNL AUTH P.GALATSIS,B.CAPRATHE,J.GILMORE,A.THOMAS,K.LINN,S.SHEEHAN, JRNL AUTH 2 W.HARTER,C.KOSTLAN,E.LUNNEY,C.STANKOVIC,J.RUBIN,K.BRADY, JRNL AUTH 3 H.ALLEN,R.TALANIAN JRNL TITL SUCCINIC ACID AMIDES AS P2-P3 REPLACEMENTS FOR INHIBITORS OF JRNL TITL 2 INTERLEUKIN-1BETA CONVERTING ENZYME (ICE OR CASPASE 1). JRNL REF BIOORG.MED.CHEM.LETT. V. 20 5184 2010 JRNL REFN ISSN 0960-894X JRNL PMID 20656488 JRNL DOI 10.1016/J.BMCL.2010.07.004 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 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 : 10574 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1000 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 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 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 : 1996 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 47 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) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL 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 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: STRUCTURE FACTOR VALIDATION DOES NOT REMARK 3 YIELD GOOD AGREEMENT BETWEEN THE REPORTED AND CALCULATED R REMARK 3 VALUES. AUTHORS STATES THAT THE STRUCTURE WAS DEPOSITED SEVERAL REMARK 3 YEARS AGO IN AN INTERNAL DATABASE AT THE MICHIGAN LABS OF PFIZER, REMARK 3 INC. WITH THE CLOSURE OF THAT SITE, THE FILES SUBMITTED TO PDB REMARK 3 ARE THE ONLY DATA THEY HAVE FOR THIS STRUCTURE. REMARK 4 REMARK 4 3NS7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-JUL-11. REMARK 100 THE DEPOSITION ID IS D_1000060214. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-AUG-99 REMARK 200 TEMPERATURE (KELVIN) : 297 REMARK 200 PH : 7.5 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 RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : MAR SCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10574 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 3.930 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.12300 REMARK 200 FOR THE DATA SET : 11.7800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.56900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.84 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 276K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 79.27500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 31.97500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 31.97500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 118.91250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 31.97500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 31.97500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 39.63750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 31.97500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 31.97500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 118.91250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 31.97500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 31.97500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 39.63750 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 79.27500 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: 5160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -82.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 0.000000 -1.000000 0.000000 63.95000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 63.95000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 79.27500 REMARK 400 REMARK 400 COMPOUND REMARK 400 UPON REACTION THE INHIBITOR COVALENTLY BINDS TO THE SG ATOM OF CYS REMARK 400 285 OF THE ENZYME (CHAIN A) FORMING A TETRAHEDRAL HEMITHIOACETYL. REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ASP A 297 OXT 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 N LEU B 394 O HOH B 29 1.18 REMARK 500 C THR B 393 O HOH B 29 1.66 REMARK 500 O PHE B 327 O HOH B 29 2.10 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 O HOH A 2 O HOH A 39 4555 0.37 REMARK 500 O HOH A 1 O HOH A 45 6455 0.45 REMARK 500 O HOH A 6 O HOH A 6 8665 1.97 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 ASP A 297 C ASP A 297 OXT 0.120 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 B 391 NE - CZ - NH1 ANGL. DEV. = -3.1 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 LEU A 138 -114.75 -115.68 REMARK 500 GLU A 139 -131.54 -122.81 REMARK 500 GLU A 140 83.36 6.97 REMARK 500 LYS A 146 66.82 -117.96 REMARK 500 GLN A 147 -107.67 -135.81 REMARK 500 LYS A 148 46.40 -82.70 REMARK 500 ALA A 150 -6.22 57.65 REMARK 500 GLU A 151 34.21 -98.79 REMARK 500 THR A 162 70.93 -107.23 REMARK 500 ARG A 178 130.67 -36.15 REMARK 500 ARG A 179 47.25 -81.66 REMARK 500 SER A 209 -82.08 -41.87 REMARK 500 THR A 226 38.44 -99.64 REMARK 500 SER A 229 174.53 175.45 REMARK 500 LEU A 265 30.73 -83.92 REMARK 500 ASN A 266 -167.24 -101.65 REMARK 500 ILE A 281 95.80 15.83 REMARK 500 ILE B 328 115.89 -163.93 REMARK 500 ASP B 336 -13.72 72.60 REMARK 500 PRO B 343 -69.72 -18.85 REMARK 500 SER B 376 6.77 -67.72 REMARK 500 PHE B 401 74.96 -2.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 137 LEU A 138 -147.39 REMARK 500 ALA A 150 GLU A 151 132.78 REMARK 500 GLY A 291 VAL A 292 -141.81 REMARK 500 CYS B 362 SER B 363 146.71 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 178 0.12 SIDE CHAIN REMARK 500 ARG A 240 0.15 SIDE CHAIN REMARK 500 ARG B 396 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE CASPASE INHIBITOR REMARK 630 MOLECULE NAME: (3S)-4-HYDROXY-3-{[(2S)-4-{[2-(2-METHYL-1H- REMARK 630 BENZIMIDAZOL-1-YL)ETHYL]AMINO}-2-(1-METHYLETHYL)-4-OXOBUTANOYL] REMARK 630 AMINO}BUTANOIC ACID REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 3NS B 1 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: 02W 02X ASJ REMARK 630 DETAILS: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3NS B 1 DBREF 3NS7 A 136 297 UNP P29466 CASP1_HUMAN 136 297 DBREF 3NS7 B 317 404 UNP P29466 CASP1_HUMAN 317 404 SEQRES 1 A 162 CYS SER LEU GLU GLU ALA GLN ARG ILE TRP LYS GLN LYS SEQRES 2 A 162 SER ALA GLU ILE TYR PRO ILE MET ASP LYS SER SER ARG SEQRES 3 A 162 THR ARG LEU ALA LEU ILE ILE CYS ASN GLU GLU PHE ASP SEQRES 4 A 162 SER ILE PRO ARG ARG THR GLY ALA GLU VAL ASP ILE THR SEQRES 5 A 162 GLY MET THR MET LEU LEU GLN ASN LEU GLY TYR SER VAL SEQRES 6 A 162 ASP VAL LYS LYS ASN LEU THR ALA SER ASP MET THR THR SEQRES 7 A 162 GLU LEU GLU ALA PHE ALA HIS ARG PRO GLU HIS LYS THR SEQRES 8 A 162 SER ASP SER THR PHE LEU VAL PHE MET SER HIS GLY ILE SEQRES 9 A 162 ARG GLU GLY ILE CYS GLY LYS LYS HIS SER GLU GLN VAL SEQRES 10 A 162 PRO ASP ILE LEU GLN LEU ASN ALA ILE PHE ASN MET LEU SEQRES 11 A 162 ASN THR LYS ASN CYS PRO SER LEU LYS ASP LYS PRO LYS SEQRES 12 A 162 VAL ILE ILE ILE GLN ALA CYS ARG GLY ASP SER PRO GLY SEQRES 13 A 162 VAL VAL TRP PHE LYS ASP SEQRES 1 B 88 ALA ILE LYS LYS ALA HIS ILE GLU LYS ASP PHE ILE ALA SEQRES 2 B 88 PHE CYS SER SER THR PRO ASP ASN VAL SER TRP ARG HIS SEQRES 3 B 88 PRO THR MET GLY SER VAL PHE ILE GLY ARG LEU ILE GLU SEQRES 4 B 88 HIS MET GLN GLU TYR ALA CYS SER CYS ASP VAL GLU GLU SEQRES 5 B 88 ILE PHE ARG LYS VAL ARG PHE SER PHE GLU GLN PRO ASP SEQRES 6 B 88 GLY ARG ALA GLN MET PRO THR THR GLU ARG VAL THR LEU SEQRES 7 B 88 THR ARG CYS PHE TYR LEU PHE PRO GLY HIS HET 3NS B 1 30 HETNAM 3NS (3S)-4-HYDROXY-3-{[(2S)-4-{[2-(2-METHYL-1H- HETNAM 2 3NS BENZIMIDAZOL-1-YL)ETHYL]AMINO}-2-(1-METHYLETHYL)-4- HETNAM 3 3NS OXOBUTANOYL]AMINO}BUTANOIC ACID FORMUL 3 3NS C21 H30 N4 O5 FORMUL 4 HOH *47(H2 O) HELIX 1 1 ARG A 143 GLN A 147 5 5 HELIX 2 2 GLY A 181 LEU A 196 1 16 HELIX 3 3 THR A 207 ARG A 221 1 15 HELIX 4 4 PRO A 222 SER A 227 5 6 HELIX 5 5 LEU A 258 LEU A 265 1 8 HELIX 6 6 CYS A 270 LYS A 274 5 5 HELIX 7 7 SER B 347 ALA B 361 1 15 HELIX 8 8 ASP B 365 SER B 376 1 12 SHEET 1 A 4 SER A 199 LYS A 204 0 SHEET 2 A 4 LEU A 164 CYS A 169 1 N ILE A 167 O ASP A 201 SHEET 3 A 4 THR A 230 MET A 235 1 O VAL A 233 N ILE A 168 SHEET 4 A 4 ILE A 282 GLN A 283 1 O GLN A 283 N PHE A 234 SHEET 1 B 6 SER A 199 LYS A 204 0 SHEET 2 B 6 LEU A 164 CYS A 169 1 N ILE A 167 O ASP A 201 SHEET 3 B 6 THR A 230 MET A 235 1 O VAL A 233 N ILE A 168 SHEET 4 B 6 LYS A 278 VAL A 279 1 O VAL A 279 N LEU A 232 SHEET 5 B 6 PHE B 327 PHE B 330 1 O ILE B 328 N LYS A 278 SHEET 6 B 6 THR B 389 GLU B 390 -1 O GLU B 390 N ALA B 329 SHEET 1 C 2 GLY A 242 CYS A 244 0 SHEET 2 C 2 ILE A 255 GLN A 257 -1 O LEU A 256 N ILE A 243 LINK SG CYS A 285 C13 3NS B 1 1555 1555 1.80 SITE 1 AC1 10 ARG A 179 SER A 236 HIS A 237 GLN A 283 SITE 2 AC1 10 ALA A 284 CYS A 285 SER B 339 TRP B 340 SITE 3 AC1 10 ARG B 341 ARG B 383 CRYST1 63.950 63.950 158.550 90.00 90.00 90.00 P 43 21 2 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 0.015637 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015637 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006307 0.00000