HEADER HYDROLASE/HYDROLASE INHIBITOR 17-AUG-06 2J33 TITLE THE ROLE OF LOOP BUNDLE HYDROGEN BONDS IN THE MATURATION AND ACTIVITY TITLE 2 OF (PRO)CASPASE-3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CASPASE-3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 29-277; COMPND 5 SYNONYM: CASP-3, APOPAIN, CYSTEINE PROTEASE CPP32, CPP-32, PROTEIN COMPND 6 YAMA, SREBP CLEAVAGE ACTIVITY 1, SCA-1, CASPASE-3 SUBUNIT P17, COMPND 7 CASPASE-3 SUBUNIT P12; COMPND 8 EC: 3.4.22.56; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES; COMPND 11 MOL_ID: 2; COMPND 12 MOLECULE: ACE-ASP-GLU-VAL-ASP-CHLOROMETHYLKETONE INHIBITOR; COMPND 13 CHAIN: B; COMPND 14 SYNONYM: AC-DEVD-CMK; COMPND 15 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: CASP3, CPP32; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630 KEYWDS PRO-CASPASE3, THIOL PROTEASE, HYDROLASE, HYDROLASE-HYDROLASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.FEENEY,C.POP,P.SWARTZ,C.MATTOS,A.C.CLARK REVDAT 5 08-MAY-19 2J33 1 REMARK LINK REVDAT 4 21-DEC-16 2J33 1 SOURCE REVDAT 3 13-JUL-11 2J33 1 VERSN REVDAT 2 24-FEB-09 2J33 1 VERSN REVDAT 1 08-NOV-06 2J33 0 JRNL AUTH B.FEENEY,C.POP,P.SWARTZ,C.MATTOS,A.C.CLARK JRNL TITL ROLE OF LOOP BUNDLE HYDROGEN BONDS IN THE MATURATION AND JRNL TITL 2 ACTIVITY OF (PRO)CASPASE-3. JRNL REF BIOCHEMISTRY V. 45 13249 2006 JRNL REFN ISSN 0006-2960 JRNL PMID 17073446 JRNL DOI 10.1021/BI0611964 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 91968.720 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 17892 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 SET) : 0.176 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1765 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.13 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2523 REMARK 3 BIN R VALUE (WORKING SET) : 0.1990 REMARK 3 BIN FREE R VALUE : 0.2330 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 275 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.014 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1930 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 252 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.41000 REMARK 3 B22 (A**2) : 5.30000 REMARK 3 B33 (A**2) : -8.70000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.19 REMARK 3 ESD FROM SIGMAA (A) : 0.12 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.23 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.17 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.980 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.250 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.790 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.330 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.270 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 33.82 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 : PROTEIN.PARAM REMARK 3 PARAMETER FILE 2 : WATER.PARAM REMARK 3 PARAMETER FILE 3 : ACE.PARAM REMARK 3 PARAMETER FILE 4 : ASK.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ACE.TOP REMARK 3 TOPOLOGY FILE 4 : ASK.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2J33 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1290029705. 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 : 8.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18581 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 31.7000 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) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.26000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 7.700 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEINS WERE DIALYZED IN A BUFFER OF REMARK 280 10 MM TRIS-HCL, PH 8.5, 1 MM DTT. THE PROTEIN WAS CONCENTRATED REMARK 280 TO 10 MG/ML USING AMICON ULTRAFREE CENTRIFUGAL FILTER DEVICES, REMARK 280 AND INHIBITOR, AC-DEVD-CMK RECONSTITUTED IN DMSO, WAS THEN ADDED REMARK 280 AT 5:1 WT:WT, INHIBITOR TO PEPTIDE. THE PROTEIN WAS DILUTED TO A REMARK 280 CONCENTRATION OF 8 MG/ML BY ADDING 10 MM TRIS-HCL, PH 8.5, REMARK 280 CONCENTRATED DTT AND CONCENTRATED NAN3 SO THAT THE FINAL BUFFER REMARK 280 WAS 10 MM TRIS-HCL, PH 8.5, 10 MM DTT, 3 MM NAN3. 2 UL OF REMARK 280 CONCENTRATED PROTEIN WAS MIXED 1:1 WITH WELL BUFFER THAT REMARK 280 CONTAINED 100 MM SODIUM CITRATE, PH 5, 3 MM NAN3, 10 MM DTT AND REMARK 280 17% PEG 6000 W/V. SOLUTIONS WERE INCUBATED AT 18 DEG C USING THE REMARK 280 HANGING DROP METHOD. CRYSTALS GREW WITHIN THREE DAYS FOR WILD- REMARK 280 TYPE CASPASE-3 AND WITHIN TWO WEEKS FOR THE MUTANTS. THE IDEAL REMARK 280 FREEZING CONDITIONS WERE FOUND TO BE WITH 80% MOTHER LIQUOR AND REMARK 280 20% PEG 400., PH 8.50, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 33.68800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 41.64850 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 47.95750 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.68800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 41.64850 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 47.95750 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.68800 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 41.64850 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 47.95750 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.68800 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 41.64850 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 47.95750 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 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 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 -1.000000 0.000000 0.000000 67.37600 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 67.37600 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 95.91500 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 95.91500 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 A2039 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2064 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 THE AC-ASP-GLU-VAL-ASP-CMK IS PEPTIDE-LIKE, A MEMBER OF INHIBITOR REMARK 400 CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: AC-ASP-GLU-VAL-ASP-CMK REMARK 400 CHAIN: B 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 CYS A 170 REMARK 465 GLY A 171 REMARK 465 ILE A 172 REMARK 465 GLU A 173 REMARK 465 THR A 174 REMARK 465 ASP A 175 REMARK 465 SER A 176 REMARK 465 GLY A 177 REMARK 465 VAL A 178 REMARK 465 ASP A 179 REMARK 465 ASP A 180 REMARK 465 ASP A 181 REMARK 465 MET A 182 REMARK 465 ALA A 183 REMARK 465 CYS A 184 REMARK 465 HIS A 185 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 PHE A 128 N 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 CD1 ILE A 31 O HOH A 2079 4566 2.06 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 120 -176.13 -172.47 REMARK 500 LYS A 229 -44.98 -130.00 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 A2064 DISTANCE = 6.44 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN B OF ACE-ASP-GLU-VAL-ASP REMARK 800 -CHLOROMETHYLKETONE INHIBITOR REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CP3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF APOPAIN WITH THE TETRAPEPTIDE REMARK 900 INHIBITOR ACE-DVAD- FMC REMARK 900 RELATED ID: 1GFW RELATED DB: PDB REMARK 900 THE 2.8 ANGSTROM CRYSTAL STRUCTURE OF CASPASE-3 (APOPAIN ORCPP32)IN REMARK 900 COMPLEX WITH AN ISATIN SULFONAMIDE INHIBITOR. REMARK 900 RELATED ID: 1I3O RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF XIAP- BIR2 AND CASPASE 3 REMARK 900 RELATED ID: 1NME RELATED DB: PDB REMARK 900 STRUCTURE OF CASP-3 WITH TETHERED SALICYLATE REMARK 900 RELATED ID: 1NMQ RELATED DB: PDB REMARK 900 EXTENDEND TETHERING: IN SITU ASSEMBLY OF INHIBITORS REMARK 900 RELATED ID: 1NMS RELATED DB: PDB REMARK 900 CASPASE-3 TETHERED TO IRREVERSIBLE INHIBITOR REMARK 900 RELATED ID: 1PAU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF APOPAIN WITH THE TETRAPEPTIDE REMARK 900 ALDEHYDE INHIBITOR AC -DEVD-CHO REMARK 900 RELATED ID: 1QX3 RELATED DB: PDB REMARK 900 CONFORMATIONAL RESTRICTIONS IN THE ACTIVE SITE OFUNLIGANDED HUMAN REMARK 900 CASPASE-3 REMARK 900 RELATED ID: 1RE1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CASPASE-3 WITH A NICOTINIC ACIDALDEHYDE REMARK 900 INHIBITOR REMARK 900 RELATED ID: 1RHJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF CASPASE -3 WITH APRYAZINONE REMARK 900 INHIBITOR REMARK 900 RELATED ID: 1RHK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF CASPASE -3 WITH A PHENYL-PROPYL- REMARK 900 KETONE INHIBITOR REMARK 900 RELATED ID: 1RHM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF CASPASE -3 WITH ANICOTINIC ACID REMARK 900 ALDEHYDE INHIBITOR REMARK 900 RELATED ID: 1RHQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF CASPASE -3 WITH REMARK 900 ABROMOMETHOXYPHENYL INHIBITOR REMARK 900 RELATED ID: 1RHR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF CASPASE -3 WITH ACINNAMIC ACID REMARK 900 METHYL ESTER INHIBITOR REMARK 900 RELATED ID: 1RHU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF CASPASE -3 WITH A 5,6, REMARK 900 7TRICYCLIC PEPTIDOMIMETIC INHIBITOR REMARK 900 RELATED ID: 2C1E RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF CASPASE-3 IN COMPLEX WITH AZA-PEPTIDE MICHAEL REMARK 900 ACCEPTOR INHIBITORS. REMARK 900 RELATED ID: 2C2K RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF CASPASE-3 IN COMPLEX WITH AZA-PEPTIDE MICHAEL REMARK 900 ACCEPTOR INHIBITORS. REMARK 900 RELATED ID: 2C2M RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF CASPASE-3 IN COMPLEX WITH AZA-PEPTIDE MICHAEL REMARK 900 ACCEPTOR INHIBITORS. REMARK 900 RELATED ID: 2C2O RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF CASPASE-3 IN COMPLEX WITH AZA-PEPTIDE MICHAEL REMARK 900 ACCEPTOR INHIBITORS. REMARK 900 RELATED ID: 2CDR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF CASPASE-3 IN COMPLEX WITH AZA-PEPTIDE EPOXIDE REMARK 900 INHIBITORS. REMARK 900 RELATED ID: 2CJX RELATED DB: PDB REMARK 900 EXTENDED SUBSTRATE RECOGNITION IN CASPASE-3 REVEALED BY HIGH REMARK 900 RESOLUTION X-RAY STRUCTURE ANALYSIS REMARK 900 RELATED ID: 2CJY RELATED DB: PDB REMARK 900 EXTENDED SUBSTRATE RECOGNITION IN CASPASE-3 REVEALED BY HIGH REMARK 900 RESOLUTION X-RAY STRUCTURE ANALYSIS REMARK 900 RELATED ID: 2CNK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF CASPASE-3 IN COMPLEX WITH AZA-PEPTIDE EPOXIDE REMARK 900 INHIBITORS. REMARK 900 RELATED ID: 2CNL RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF CASPASE-3 IN COMPLEX WITH AZA-PEPTIDE EPOXIDE REMARK 900 INHIBITORS. REMARK 900 RELATED ID: 2CNN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF CASPASE-3 IN COMPLEX WITH AZA-PEPTIDE EPOXIDE REMARK 900 INHIBITORS. REMARK 900 RELATED ID: 2CNO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF CASPASE-3 IN COMPLEX WITH AZA-PEPTIDE EPOXIDE REMARK 900 INHIBITORS. RELATED ENTRIES REMARK 900 RELATED ID: 2J30 RELATED DB: PDB REMARK 900 THE ROLE OF LOOP BUNDLE HYDROGEN BONDS IN THE MATURATION AND REMARK 900 ACTIVITY OF (PRO) CASPASE-3 REMARK 900 RELATED ID: 2J31 RELATED DB: PDB REMARK 900 THE ROLE OF LOOP BUNDLE HYDROGEN BONDS IN THE MATURATION AND REMARK 900 ACTIVITY OF(PRO)CASPASE -3 REMARK 900 RELATED ID: 2J32 RELATED DB: PDB REMARK 900 THE ROLE OF LOOP BUNDLE HYDROGEN BONDS IN THE MATURATION AND REMARK 900 ACTIVITY OF(PRO)CASPASE-3 DBREF 2J33 A 29 277 UNP P42574 CASP3_HUMAN 29 277 DBREF 2J33 B 1 6 PDB 2J33 2J33 1 6 SEQADV 2J33 PHE A 203 UNP P42574 TYR 203 ENGINEERED MUTATION SEQADV 2J33 HIS A 278 UNP P42574 EXPRESSION TAG SEQRES 1 A 250 SER GLY ILE SER LEU ASP ASN SER TYR LYS MET ASP TYR SEQRES 2 A 250 PRO GLU MET GLY LEU CYS ILE ILE ILE ASN ASN LYS ASN SEQRES 3 A 250 PHE HIS LYS SER THR GLY MET THR SER ARG SER GLY THR SEQRES 4 A 250 ASP VAL ASP ALA ALA ASN LEU ARG GLU THR PHE ARG ASN SEQRES 5 A 250 LEU LYS TYR GLU VAL ARG ASN LYS ASN ASP LEU THR ARG SEQRES 6 A 250 GLU GLU ILE VAL GLU LEU MET ARG ASP VAL SER LYS GLU SEQRES 7 A 250 ASP HIS SER LYS ARG SER SER PHE VAL CYS VAL LEU LEU SEQRES 8 A 250 SER HIS GLY GLU GLU GLY ILE ILE PHE GLY THR ASN GLY SEQRES 9 A 250 PRO VAL ASP LEU LYS LYS ILE THR ASN PHE PHE ARG GLY SEQRES 10 A 250 ASP ARG CYS ARG SER LEU THR GLY LYS PRO LYS LEU PHE SEQRES 11 A 250 ILE ILE GLN ALA CYS ARG GLY THR GLU LEU ASP CYS GLY SEQRES 12 A 250 ILE GLU THR ASP SER GLY VAL ASP ASP ASP MET ALA CYS SEQRES 13 A 250 HIS LYS ILE PRO VAL GLU ALA ASP PHE LEU TYR ALA TYR SEQRES 14 A 250 SER THR ALA PRO GLY PHE TYR SER TRP ARG ASN SER LYS SEQRES 15 A 250 ASP GLY SER TRP PHE ILE GLN SER LEU CYS ALA MET LEU SEQRES 16 A 250 LYS GLN TYR ALA ASP LYS LEU GLU PHE MET HIS ILE LEU SEQRES 17 A 250 THR ARG VAL ASN ARG LYS VAL ALA THR GLU PHE GLU SER SEQRES 18 A 250 PHE SER PHE ASP ALA THR PHE HIS ALA LYS LYS GLN ILE SEQRES 19 A 250 PRO CYS ILE VAL SER MET LEU THR LYS GLU LEU TYR PHE SEQRES 20 A 250 TYR HIS HIS SEQRES 1 B 6 ACE ASP GLU VAL ASP 0QE HET ACE B 1 3 HET 0QE B 6 1 HETNAM ACE ACETYL GROUP HETNAM 0QE CHLOROMETHANE HETSYN 0QE CHLORO METHYL GROUP FORMUL 2 ACE C2 H4 O FORMUL 2 0QE C H3 CL FORMUL 3 HOH *252(H2 O) HELIX 1 1 HIS A 56 GLY A 60 5 5 HELIX 2 2 GLY A 66 LEU A 81 1 16 HELIX 3 3 THR A 92 LYS A 105 1 14 HELIX 4 4 LEU A 136 PHE A 142 1 7 HELIX 5 5 CYS A 148 THR A 152 5 5 HELIX 6 6 TRP A 214 ALA A 227 1 14 HELIX 7 7 GLU A 231 PHE A 247 1 17 HELIX 8 8 ASP A 253 HIS A 257 5 5 SHEET 1 AA 6 GLU A 84 ASN A 89 0 SHEET 2 AA 6 GLU A 43 ASN A 51 1 O GLY A 45 N GLU A 84 SHEET 3 AA 6 ARG A 111 LEU A 119 1 N SER A 112 O GLU A 43 SHEET 4 AA 6 LYS A 156 GLN A 161 1 O LEU A 157 N CYS A 116 SHEET 5 AA 6 PHE A 193 TYR A 197 1 O LEU A 194 N PHE A 158 SHEET 6 AA 6 CYS A 264 SER A 267 -1 O CYS A 264 N TYR A 197 SHEET 1 AB 3 GLY A 122 GLU A 123 0 SHEET 2 AB 3 ILE A 126 GLY A 129 -1 O ILE A 126 N GLU A 123 SHEET 3 AB 3 GLY A 132 ASP A 135 -1 O GLY A 132 N GLY A 129 SHEET 1 AC 3 GLY A 212 SER A 213 0 SHEET 2 AC 3 TRP A 206 ASN A 208 -1 O ASN A 208 N GLY A 212 SHEET 3 AC 3 GLU B 3 VAL B 4 -1 O GLU B 3 N ARG A 207 LINK C ACE B 1 N ASP B 2 1555 1555 1.33 LINK C ASP B 5 C1 0QE B 6 1555 1555 1.54 SITE 1 AC1 26 SER A 58 ARG A 64 HIS A 121 GLY A 122 SITE 2 AC1 26 GLN A 161 CYS A 163 TYR A 204 SER A 205 SITE 3 AC1 26 TRP A 206 ARG A 207 ASN A 208 SER A 209 SITE 4 AC1 26 TRP A 214 SER A 249 PHE A 250 HOH A2037 SITE 5 AC1 26 HOH A2046 HOH A2193 HOH A2220 HOH A2221 SITE 6 AC1 26 0QE B 6 HOH B2001 HOH B2002 HOH B2003 SITE 7 AC1 26 HOH B2005 HOH B2006 CRYST1 67.376 83.297 95.915 90.00 90.00 90.00 I 2 2 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 0.014842 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012005 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010426 0.00000