HEADER HYDROLASE/HYDROLASE INHIBITOR 19-MAY-08 3D6F TITLE CRYSTAL STRUCTURE OF HUMAN CASPASE-1 WITH A NATURALLY-OCCURRING TITLE 2 ARG240->GLN 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; 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 6 30-AUG-23 3D6F 1 REMARK REVDAT 5 20-OCT-21 3D6F 1 SEQADV LINK REVDAT 4 23-MAY-12 3D6F 1 DBREF REVDAT 3 23-NOV-11 3D6F 1 DBREF REVDAT 2 13-JUL-11 3D6F 1 VERSN REVDAT 1 02-MAR-10 3D6F 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 JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.90 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 25559 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) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.214 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 : 1359 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2428 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2680 REMARK 3 BIN FREE R VALUE SET COUNT : 131 REMARK 3 BIN FREE R VALUE : 0.3450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2098 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 246 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.00000 REMARK 3 B22 (A**2) : 1.00000 REMARK 3 B33 (A**2) : -2.01000 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): 0.160 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.142 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.095 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.203 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.925 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2160 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2912 ; 0.913 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 259 ; 5.070 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 98 ;37.021 ;24.082 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 392 ;14.059 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;13.284 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 326 ; 0.060 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1604 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1047 ; 0.158 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1477 ; 0.292 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 198 ; 0.082 ; 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): 67 ; 0.134 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 33 ; 0.090 ; 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): 1359 ; 1.374 ; 2.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2129 ; 2.252 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 902 ; 1.356 ; 2.500 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 783 ; 2.207 ; 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 : NULL 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 3D6F 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_1000047650. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-SEP-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 : 5.0.1 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 : ASYMMETRIC CURVED CRYSTAL; REMARK 200 CRYSTAL TYPE S(220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27088 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 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 (%) : 98.8 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.33700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 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 (%): 54.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.73 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 80.91750 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 32.02300 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 32.02300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 121.37625 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 32.02300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 32.02300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 40.45875 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 32.02300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 32.02300 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 121.37625 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 32.02300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 32.02300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 40.45875 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 80.91750 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: 17930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -101.0 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 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 161.83500 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B 151 LIES ON A SPECIAL POSITION. 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 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 ASP C 4 C ASP C 4 O 0.194 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 -98.67 -73.72 REMARK 500 ALA A 150 44.36 -105.90 REMARK 500 ASP B 336 -11.68 78.91 REMARK 500 ASP B 381 -153.57 -109.37 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: 3D6H RELATED DB: PDB REMARK 900 RELATED ID: 3D6M RELATED DB: PDB REMARK 900 RELATED ID: 1SC3 RELATED DB: PDB DBREF 3D6F A 120 297 UNP P29466 CASP1_HUMAN 120 297 DBREF 3D6F B 317 404 UNP P29466 CASP1_HUMAN 317 404 DBREF 3D6F C 1 5 PDB 3D6F 3D6F 1 5 SEQADV 3D6F MET A 119 UNP P29466 EXPRESSION TAG SEQADV 3D6F GLN A 240 UNP P29466 ARG 240 ENGINEERED MUTATION SEQADV 3D6F 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 GLN 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 ASN 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 *246(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 HIS A 220 1 14 HELIX 4 4 ARG A 221 SER A 227 5 7 HELIX 5 5 GLN A 257 ASN A 266 1 10 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 PHE B 377 1 13 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 LYS A 203 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 VAL A 279 N LEU A 232 SHEET 5 A 6 PHE B 327 CYS B 331 1 O ILE B 328 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 3 GLY A 238 ILE A 239 0 SHEET 2 B 3 GLY A 242 CYS A 244 -1 O GLY A 242 N ILE A 239 SHEET 3 B 3 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 11 ARG A 179 HIS A 237 GLY A 238 GLN A 283 SITE 2 AC1 11 CYS A 285 SER B 339 TRP B 340 ARG B 341 SITE 3 AC1 11 HIS B 342 HOH C 382 HOH C 438 CRYST1 64.046 64.046 161.835 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 0.015614 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015614 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006179 0.00000