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 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 MASTER 350 0 2 8 11 0 3 6 0 0 0 22 END