HEADER HYDROLASE/HYDROLASE INHIBITOR 19-MAY-08 3D6H TITLE CRYSTAL STRUCTURE OF HUMAN CASPASE-1 WITH A NATURALLY-OCCURRING TITLE 2 ASN263->SER SUBSTITUTION IN COMPLEX WITH 3-[2-(2- TITLE 3 BENZYLOXYCARBONYLAMINO-3-METHYL-BUTYRYLAMINO)-PROPIONYLAMINO]-4-OXO- TITLE 4 PENTANOIC ACID (Z-VAD-FMK) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CASPASE-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CASPASE-1 SUBUNIT P20; COMPND 5 SYNONYM: CASP-1, INTERLEUKIN-1 BETA CONVERTASE, IL-1BC, IL-1 BETA- COMPND 6 CONVERTING ENZYME, ICE, INTERLEUKIN-1 BETA-CONVERTING ENZYME, P45, COMPND 7 CASPASE-1 SUBUNIT P20, CASPASE-1 SUBUNIT P10; COMPND 8 EC: 3.4.22.36; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES; COMPND 11 MOL_ID: 2; COMPND 12 MOLECULE: CASPASE-1 PRECURSOR; COMPND 13 CHAIN: B; COMPND 14 FRAGMENT: CASPASE-1 SUBUNIT P10; COMPND 15 SYNONYM: CASP-1, INTERLEUKIN-1 BETA CONVERTASE, IL-1BC, IL-1 BETA- COMPND 16 CONVERTING ENZYME, ICE, INTERLEUKIN-1 BETA-CONVERTING ENZYME, P45, COMPND 17 CASPASE-1 SUBUNIT P20, CASPASE-1 SUBUNIT P10; COMPND 18 EC: 3.4.22.36; COMPND 19 ENGINEERED: YES; COMPND 20 MOL_ID: 3; COMPND 21 MOLECULE: N-[(BENZYLOXY)CARBONYL]-L-VALYL-N-[(2S)-1-CARBOXY-4-FLUORO- COMPND 22 3-OXOBUTAN-2-YL]-L-ALANINAMIDE; COMPND 23 CHAIN: C; COMPND 24 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_STRAIN: BL21(DE3) CODON+; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRSET B; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: CASP1, IL1BC, IL1BCE; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) CODON+; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PRSET B; SOURCE 21 MOL_ID: 3; SOURCE 22 SYNTHETIC: YES KEYWDS CATALYTIC DOMAIN, NATURALLY-OCCURRING MUTATION, APOPTOSIS, HYDROLASE, KEYWDS 2 PROTEASE, THIOL PROTEASE, ZYMOGEN, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.ROSEN-WOLFF,J.ROESLER,M.J.ROMANOWSKI REVDAT 5 30-AUG-23 3D6H 1 REMARK REVDAT 4 20-OCT-21 3D6H 1 SEQADV LINK REVDAT 3 13-JUL-11 3D6H 1 VERSN REVDAT 2 16-MAR-10 3D6H 1 REMARK REVDAT 1 02-MAR-10 3D6H 0 JRNL AUTH A.ROSEN-WOLFF,M.J.ROMANOWSKI,L.RITTER,S.FLECKS,N.QUOOS, JRNL AUTH 2 J.GRAMATT,C.PETZOLD,H.D.NGUYEN,M.GAHR,J.ROESLER JRNL TITL MUTATED, STRUCTURALLY ALTERED CASPASE-1 WITH DECREASED JRNL TITL 2 ENZYMATIC AND INCREASED RIP2-MEDITATED INFLAMMATORY ACTIVITY JRNL TITL 3 LEADS TO A NEW TYPE OF PERIODIC FEVER (ICE FEVER). JRNL REF TO BE PUBLISHED 2008 JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 3 NUMBER OF REFLECTIONS : 18630 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1011 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 15 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.07 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1582 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.2060 REMARK 3 BIN FREE R VALUE SET COUNT : 81 REMARK 3 BIN FREE R VALUE : 0.2710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2056 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 180 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.54000 REMARK 3 B22 (A**2) : -1.54000 REMARK 3 B33 (A**2) : 3.08000 REMARK 3 B12 (A**2) : 0.00000 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): 0.199 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.169 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.116 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.060 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.904 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2110 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2842 ; 1.183 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 252 ; 5.891 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 94 ;38.304 ;23.617 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 385 ;14.968 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;15.764 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 317 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1561 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 920 ; 0.189 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1406 ; 0.299 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 165 ; 0.133 ; 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): 52 ; 0.178 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 22 ; 0.107 ; 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): 1322 ; 2.679 ; 2.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2070 ; 3.909 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 887 ; 2.898 ; 2.500 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 772 ; 4.353 ; 5.000 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 317 B 317 REMARK 3 RESIDUE RANGE : A 1 A 1 REMARK 3 ORIGIN FOR THE GROUP (A): 31.0324 9.3696 41.0698 REMARK 3 T TENSOR REMARK 3 T11: 0.0791 T22: 0.0848 REMARK 3 T33: -0.1596 T12: 0.0231 REMARK 3 T13: -0.0419 T23: 0.0435 REMARK 3 L TENSOR REMARK 3 L11: 22.3879 L22: 2.0494 REMARK 3 L33: 46.8092 L12: 2.6880 REMARK 3 L13: -8.7156 L23: -9.7047 REMARK 3 S TENSOR REMARK 3 S11: 1.1386 S12: 2.2594 S13: -0.2678 REMARK 3 S21: 1.7010 S22: 0.3204 S23: 0.3856 REMARK 3 S31: -1.4271 S32: 0.5024 S33: -1.4591 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 3D6H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-MAY-08. REMARK 100 THE DEPOSITION ID IS D_1000047652. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-AUG-06 REMARK 200 TEMPERATURE (KELVIN) : 160 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : IQUID NITROGEN COOLED DUAL REMARK 200 CRYSTAL; CRYSTAL TYPE S(111) REMARK 200 OPTICS : VERTICALLY COLLIMATING REMARK 200 PREMIRROR, LN2 COOLED DOUBLE- REMARK 200 CRYSTAL SILICON (111) REMARK 200 MONOCHROMATOR, TOROIDAL FOCUSING REMARK 200 M2 MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19651 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.27600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 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: 1SC3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS OBTAINED BY HANGING-DROP REMARK 280 VAPOR DIFFUSION AT 4 C (277K) AGAINST A RESERVOIR OF 0.1 M PIPES REMARK 280 PH 6.0, 75-175 MM (NH4)2SO4, 25% PEG 2000 MME, 10 MM DTT, 3 MM REMARK 280 NAN3, AND 2 MM MGCL2. ALL CRYSTALS CRYOPROTECTED IN MOTHER REMARK 280 LIQUORS SUPPLEMENTED WITH 20% (V/V) GLYCEROL FOR 30-90 SEC AND REMARK 280 IMMERSION IN LIQUID NITROGEN. , VAPOR DIFFUSION, HANGING DROP 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 71.27350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 31.68850 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 31.68850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 106.91025 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 31.68850 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 31.68850 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 35.63675 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 31.68850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 31.68850 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 106.91025 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 31.68850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 31.68850 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 35.63675 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 71.27350 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 300 REMARK: DIMER OF THE P20/P10 DIMER 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 18000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -97.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 BIOMT1 2 0.000000 -1.000000 0.000000 63.37700 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 63.37700 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 71.27350 REMARK 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 THE N-[(BENZYLOXY)CARBONYL]-L-VALYL-N-[(1S)-1-(CARBOXYMETHYL)-3- REMARK 400 FLUORO-2-OXOPROPYL]-L-ALANINAMIDE IS PEPTIDE-LIKE, A MEMBER OF REMARK 400 INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: N-[(BENZYLOXY)CARBONYL]-L-VALYL-N-[(1S)-1-(CARBOXYMETHYL)-3- REMARK 400 FLUORO-2-OXOPROPYL]-L-ALANINAMIDE REMARK 400 CHAIN: C REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL 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 119 REMARK 465 ASN A 120 REMARK 465 PRO A 121 REMARK 465 ALA A 122 REMARK 465 MET A 123 REMARK 465 PRO A 124 REMARK 465 THR A 125 REMARK 465 SER A 126 REMARK 465 SER A 127 REMARK 465 GLY A 128 REMARK 465 SER A 129 REMARK 465 GLU A 130 REMARK 465 GLY A 131 REMARK 465 MET B 316 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 ALA B 317 N ALA B 317 CA 0.258 REMARK 500 ASP C 4 C ASP C 4 O 0.200 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 SER A 149 -96.05 -74.16 REMARK 500 ALA A 150 50.41 -105.27 REMARK 500 ASN A 205 72.34 49.60 REMARK 500 SER A 229 166.88 178.55 REMARK 500 ASP B 336 -16.54 88.65 REMARK 500 ASP B 381 -135.34 -69.74 REMARK 500 ARG B 383 73.52 -115.92 REMARK 500 PHE B 401 63.16 35.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN C OF N REMARK 800 -[(BENZYLOXY)CARBONYL]-L-VALYL-N-[(2S)-1-CARBOXY-4-FLUORO- 3- REMARK 800 OXOBUTAN-2-YL]-L-ALANINAMIDE REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3D6F RELATED DB: PDB REMARK 900 RELATED ID: 3D6M RELATED DB: PDB REMARK 900 RELATED ID: 1SC3 RELATED DB: PDB DBREF 3D6H A 120 297 UNP P29466 CASP1_HUMAN 120 297 DBREF 3D6H B 317 404 UNP P29466 CASP1_HUMAN 317 404 DBREF 3D6H C 1 5 PDB 3D6H 3D6H 1 5 SEQADV 3D6H MET A 119 UNP P29466 EXPRESSION TAG SEQADV 3D6H SER A 263 UNP P29466 ASN 263 ENGINEERED MUTATION SEQADV 3D6H MET B 316 UNP P29466 EXPRESSION TAG SEQRES 1 A 179 MET ASN PRO ALA MET PRO THR SER SER GLY SER GLU GLY SEQRES 2 A 179 ASN VAL LYS LEU CYS SER LEU GLU GLU ALA GLN ARG ILE SEQRES 3 A 179 TRP LYS GLN LYS SER ALA GLU ILE TYR PRO ILE MET ASP SEQRES 4 A 179 LYS SER SER ARG THR ARG LEU ALA LEU ILE ILE CYS ASN SEQRES 5 A 179 GLU GLU PHE ASP SER ILE PRO ARG ARG THR GLY ALA GLU SEQRES 6 A 179 VAL ASP ILE THR GLY MET THR MET LEU LEU GLN ASN LEU SEQRES 7 A 179 GLY TYR SER VAL ASP VAL LYS LYS ASN LEU THR ALA SER SEQRES 8 A 179 ASP MET THR THR GLU LEU GLU ALA PHE ALA HIS ARG PRO SEQRES 9 A 179 GLU HIS LYS THR SER ASP SER THR PHE LEU VAL PHE MET SEQRES 10 A 179 SER HIS GLY ILE ARG GLU GLY ILE CYS GLY LYS LYS HIS SEQRES 11 A 179 SER GLU GLN VAL PRO ASP ILE LEU GLN LEU ASN ALA ILE SEQRES 12 A 179 PHE SER MET LEU ASN THR LYS ASN CYS PRO SER LEU LYS SEQRES 13 A 179 ASP LYS PRO LYS VAL ILE ILE ILE GLN ALA CYS ARG GLY SEQRES 14 A 179 ASP SER PRO GLY VAL VAL TRP PHE LYS ASP SEQRES 1 B 89 MET ALA ILE LYS LYS ALA HIS ILE GLU LYS ASP PHE ILE SEQRES 2 B 89 ALA PHE CYS SER SER THR PRO ASP ASN VAL SER TRP ARG SEQRES 3 B 89 HIS PRO THR MET GLY SER VAL PHE ILE GLY ARG LEU ILE SEQRES 4 B 89 GLU HIS MET GLN GLU TYR ALA CYS SER CYS ASP VAL GLU SEQRES 5 B 89 GLU ILE PHE ARG LYS VAL ARG PHE SER PHE GLU GLN PRO SEQRES 6 B 89 ASP GLY ARG ALA GLN MET PRO THR THR GLU ARG VAL THR SEQRES 7 B 89 LEU THR ARG CYS PHE TYR LEU PHE PRO GLY HIS SEQRES 1 C 5 PHQ VAL ALA ASP CF0 HET PHQ C 1 10 HET CF0 C 5 1 HETNAM PHQ BENZYL CHLOROCARBONATE HETNAM CF0 FLUOROMETHANE HETSYN CF0 FLUORO METHYL GROUP FORMUL 3 PHQ C8 H7 CL O2 FORMUL 3 CF0 C H3 F FORMUL 4 HOH *180(H2 O) HELIX 1 1 SER A 137 LYS A 148 1 12 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 GLN A 257 LEU A 265 1 9 HELIX 6 6 CYS A 270 LYS A 274 5 5 HELIX 7 7 VAL B 348 ALA B 361 1 14 HELIX 8 8 ASP B 365 SER B 376 1 12 SHEET 1 A 6 SER A 199 LYS A 204 0 SHEET 2 A 6 LEU A 164 CYS A 169 1 N ILE A 167 O ASP A 201 SHEET 3 A 6 THR A 230 MET A 235 1 O VAL A 233 N LEU A 166 SHEET 4 A 6 LYS A 278 GLN A 283 1 O GLN A 283 N PHE A 234 SHEET 5 A 6 PHE B 327 CYS B 331 1 O PHE B 330 N ILE A 280 SHEET 6 A 6 THR B 388 GLU B 390 -1 O THR B 388 N CYS B 331 SHEET 1 B 2 ILE A 243 CYS A 244 0 SHEET 2 B 2 ILE A 255 LEU A 256 -1 O LEU A 256 N ILE A 243 SHEET 1 C 2 ARG B 341 HIS B 342 0 SHEET 2 C 2 GLY B 346 SER B 347 -1 O GLY B 346 N HIS B 342 LINK SG CYS A 285 C1 CF0 C 5 1555 1555 1.81 LINK C1 PHQ C 1 N VAL C 2 1555 1555 1.33 LINK C ASP C 4 C1 CF0 C 5 1555 1555 1.53 SITE 1 AC1 12 ARG A 179 HIS A 237 GLY A 238 GLN A 283 SITE 2 AC1 12 CYS A 285 HOH B 168 SER B 339 TRP B 340 SITE 3 AC1 12 ARG B 341 HIS B 342 ARG B 383 HOH C 400 CRYST1 63.377 63.377 142.547 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 0.015779 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015779 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007015 0.00000