PDB Short entry for 3R7B HEADER HYDROLASE/HYDROLASE INHIBITOR 22-MAR-11 3R7B TITLE CASPASE-2 BOUND TO ONE COPY OF AC-DVAD-CHO COMPND MOL_ID: 1; COMPND 2 MOLECULE: CASPASE-2 SUBUNIT P18; COMPND 3 CHAIN: A, C; COMPND 4 EC: 3.4.22.55; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: CASPASE-2 SUBUNIT P12; COMPND 8 CHAIN: B, D; COMPND 9 EC: 3.4.22.55; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: PEPTIDE INHIBITOR (ACE)DVAD-CHO; COMPND 13 CHAIN: F; COMPND 14 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: CASP2, ICH1, NEDD2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: CASP2, ICH1, NEDD2; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES KEYWDS HYDROLASE, APOPTOSIS, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Y.TANG,J.WELLS,M.ARKIN REVDAT 2 19-OCT-11 3R7B 1 JRNL REVDAT 1 27-JUL-11 3R7B 0 JRNL AUTH Y.TANG,J.A.WELLS,M.R.ARKIN JRNL TITL STRUCTURAL AND ENZYMATIC INSIGHTS INTO CASPASE-2 PROTEIN JRNL TITL 2 SUBSTRATE RECOGNITION AND CATALYSIS. JRNL REF J.BIOL.CHEM. V. 286 34147 2011 JRNL REFN ISSN 0021-9258 JRNL PMID 21828056 JRNL DOI 10.1074/JBC.M111.247627 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 52822 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2820 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3727 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.71 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 200 REMARK 3 BIN FREE R VALUE : 0.2490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3950 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 441 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.20000 REMARK 3 B22 (A**2) : -1.07000 REMARK 3 B33 (A**2) : -0.13000 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): 0.117 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.115 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.070 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.184 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4063 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5501 ; 1.372 ; 1.955 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 517 ; 5.616 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 185 ;34.563 ;23.676 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 675 ;12.017 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;13.391 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 608 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3093 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2554 ; 0.909 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4080 ; 1.751 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1509 ; 2.615 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1414 ; 4.328 ; 4.500 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3R7B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-APR-11. REMARK 100 THE RCSB ID CODE IS RCSB064579. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.11 REMARK 200 MONOCHROMATOR : DOUBLE FLAT CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55954 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES (PH 7.0), 15% PEG 3350, 3MM REMARK 280 DTT, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 31.50100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.96800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.43100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.96800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.50100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.43100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 15960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -85.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, F 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 400 REMARK 400 COMPOUND REMARK 400 THERE ARE NO LINKS BETWEEN CYS 320 AND CHAIN F 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 GLU A 213 REMARK 465 LYS A 214 REMARK 465 GLU A 215 REMARK 465 ASP A 333 REMARK 465 GLY B 349 REMARK 465 LYS B 350 REMARK 465 GLU B 351 REMARK 465 LYS B 352 REMARK 465 LEU B 353 REMARK 465 PRO B 354 REMARK 465 THR B 424 REMARK 465 GLU B 425 REMARK 465 THR B 452 REMARK 465 LEU B 453 REMARK 465 GLU B 454 REMARK 465 HIS B 455 REMARK 465 HIS B 456 REMARK 465 HIS B 457 REMARK 465 HIS B 458 REMARK 465 HIS B 459 REMARK 465 HIS B 460 REMARK 465 ASP C 333 REMARK 465 GLY D 349 REMARK 465 LYS D 350 REMARK 465 GLU D 351 REMARK 465 LYS D 352 REMARK 465 LEU D 353 REMARK 465 PRO D 354 REMARK 465 LYS D 355 REMARK 465 THR D 452 REMARK 465 LEU D 453 REMARK 465 GLU D 454 REMARK 465 HIS D 455 REMARK 465 HIS D 456 REMARK 465 HIS D 457 REMARK 465 HIS D 458 REMARK 465 HIS D 459 REMARK 465 HIS D 460 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 THR A 211 OG1 CG2 REMARK 470 GLU A 217 CG CD OE1 OE2 REMARK 470 LYS A 289 CG CD CE NZ REMARK 470 GLU A 295 CG CD OE1 OE2 REMARK 470 ASP A 323 CG OD1 OD2 REMARK 470 GLU A 324 CG CD OE1 OE2 REMARK 470 THR A 325 OG1 CG2 REMARK 470 LYS B 355 CG CD CE NZ REMARK 470 ARG B 378 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 381 CG CD CE NZ REMARK 470 PHE B 426 CG CD1 CD2 CE1 CE2 CZ REMARK 470 MET C 174 N REMARK 470 LYS C 177 CG CD CE NZ REMARK 470 GLU C 182 CD OE1 OE2 REMARK 470 ARG C 193 CZ NH1 NH2 REMARK 470 GLU C 213 CG CD OE1 OE2 REMARK 470 GLU C 215 CG CD OE1 OE2 REMARK 470 GLU C 217 CG CD OE1 OE2 REMARK 470 GLU C 253 CD OE1 OE2 REMARK 470 ARG C 265 CD NE CZ NH1 NH2 REMARK 470 ASP C 323 CG OD1 OD2 REMARK 470 GLU C 324 CG CD OE1 OE2 REMARK 470 ARG C 327 NE CZ NH1 NH2 REMARK 470 GLU D 396 CG CD OE1 OE2 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 SER D 384 OG REMARK 480 MET D 401 CE REMARK 480 CYS D 440 SG 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 OE1 GLU D 425 O HOH C 645 3555 2.06 REMARK 500 O HOH A 636 O HOH D 590 2455 2.11 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 CYS D 440 CB CYS D 440 SG -0.133 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 194 70.34 -152.82 REMARK 500 PHE A 210 -162.43 -121.76 REMARK 500 THR A 211 -85.68 -179.97 REMARK 500 SER A 276 -169.88 -167.51 REMARK 500 LYS B 372 127.70 -39.92 REMARK 500 THR B 380 3.21 -66.18 REMARK 500 LYS B 381 -54.72 -129.65 REMARK 500 ASP B 400 12.33 -141.40 REMARK 500 ALA B 421 64.43 -170.78 REMARK 500 LEU C 194 72.43 -156.24 REMARK 500 SER C 276 -178.67 -171.23 REMARK 500 ASP D 400 13.12 -142.47 REMARK 500 ALA D 421 64.89 -165.00 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 F OF PEPTIDE (ACE)DVAD-CHO REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3R6L RELATED DB: PDB REMARK 900 CASPASE-2 T380A BOUND WITH AC-VDVAD-CHO REMARK 900 RELATED ID: 3R6G RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ACTIVE CASPASE-2 BOUND WITH AC-VDVAD- REMARK 900 CHO REMARK 900 RELATED ID: 3R7S RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF APO CASPASE2 REMARK 900 RELATED ID: 3R5J RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ACTIVE CASPASE-2 BOUND WITH AC-ADVAD- REMARK 900 CHO REMARK 900 RELATED ID: 3R7N RELATED DB: PDB REMARK 900 CASPASE-2 BOUND WITH TWO COPIES OF AC-DVAD-CHO DBREF 3R7B A 175 333 UNP P42575 CASP2_HUMAN 175 333 DBREF 3R7B B 349 452 UNP P42575 CASP2_HUMAN 349 452 DBREF 3R7B C 175 333 UNP P42575 CASP2_HUMAN 175 333 DBREF 3R7B D 349 452 UNP P42575 CASP2_HUMAN 349 452 DBREF 3R7B F 402 406 PDB 3R7B 3R7B 402 406 SEQADV 3R7B MET A 174 UNP P42575 EXPRESSION TAG SEQADV 3R7B LEU B 453 UNP P42575 EXPRESSION TAG SEQADV 3R7B GLU B 454 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS B 455 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS B 456 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS B 457 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS B 458 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS B 459 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS B 460 UNP P42575 EXPRESSION TAG SEQADV 3R7B MET C 174 UNP P42575 EXPRESSION TAG SEQADV 3R7B LEU D 453 UNP P42575 EXPRESSION TAG SEQADV 3R7B GLU D 454 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS D 455 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS D 456 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS D 457 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS D 458 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS D 459 UNP P42575 EXPRESSION TAG SEQADV 3R7B HIS D 460 UNP P42575 EXPRESSION TAG SEQRES 1 A 160 MET GLN VAL LYS PRO CYS THR PRO GLU PHE TYR GLN THR SEQRES 2 A 160 HIS PHE GLN LEU ALA TYR ARG LEU GLN SER ARG PRO ARG SEQRES 3 A 160 GLY LEU ALA LEU VAL LEU SER ASN VAL HIS PHE THR GLY SEQRES 4 A 160 GLU LYS GLU LEU GLU PHE ARG SER GLY GLY ASP VAL ASP SEQRES 5 A 160 HIS SER THR LEU VAL THR LEU PHE LYS LEU LEU GLY TYR SEQRES 6 A 160 ASP VAL HIS VAL LEU CYS ASP GLN THR ALA GLN GLU MET SEQRES 7 A 160 GLN GLU LYS LEU GLN ASN PHE ALA GLN LEU PRO ALA HIS SEQRES 8 A 160 ARG VAL THR ASP SER CYS ILE VAL ALA LEU LEU SER HIS SEQRES 9 A 160 GLY VAL GLU GLY ALA ILE TYR GLY VAL ASP GLY LYS LEU SEQRES 10 A 160 LEU GLN LEU GLN GLU VAL PHE GLN LEU PHE ASP ASN ALA SEQRES 11 A 160 ASN CYS PRO SER LEU GLN ASN LYS PRO LYS MET PHE PHE SEQRES 12 A 160 ILE GLN ALA CYS ARG GLY ASP GLU THR ASP ARG GLY VAL SEQRES 13 A 160 ASP GLN GLN ASP SEQRES 1 B 112 GLY LYS GLU LYS LEU PRO LYS MET ARG LEU PRO THR ARG SEQRES 2 B 112 SER ASP MET ILE CYS GLY TYR ALA CYS LEU LYS GLY THR SEQRES 3 B 112 ALA ALA MET ARG ASN THR LYS ARG GLY SER TRP TYR ILE SEQRES 4 B 112 GLU ALA LEU ALA GLN VAL PHE SER GLU ARG ALA CYS ASP SEQRES 5 B 112 MET HIS VAL ALA ASP MET LEU VAL LYS VAL ASN ALA LEU SEQRES 6 B 112 ILE LYS ASP ARG GLU GLY TYR ALA PRO GLY THR GLU PHE SEQRES 7 B 112 HIS ARG CYS LYS GLU MET SER GLU TYR CYS SER THR LEU SEQRES 8 B 112 CYS ARG HIS LEU TYR LEU PHE PRO GLY HIS PRO PRO THR SEQRES 9 B 112 LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 160 MET GLN VAL LYS PRO CYS THR PRO GLU PHE TYR GLN THR SEQRES 2 C 160 HIS PHE GLN LEU ALA TYR ARG LEU GLN SER ARG PRO ARG SEQRES 3 C 160 GLY LEU ALA LEU VAL LEU SER ASN VAL HIS PHE THR GLY SEQRES 4 C 160 GLU LYS GLU LEU GLU PHE ARG SER GLY GLY ASP VAL ASP SEQRES 5 C 160 HIS SER THR LEU VAL THR LEU PHE LYS LEU LEU GLY TYR SEQRES 6 C 160 ASP VAL HIS VAL LEU CYS ASP GLN THR ALA GLN GLU MET SEQRES 7 C 160 GLN GLU LYS LEU GLN ASN PHE ALA GLN LEU PRO ALA HIS SEQRES 8 C 160 ARG VAL THR ASP SER CYS ILE VAL ALA LEU LEU SER HIS SEQRES 9 C 160 GLY VAL GLU GLY ALA ILE TYR GLY VAL ASP GLY LYS LEU SEQRES 10 C 160 LEU GLN LEU GLN GLU VAL PHE GLN LEU PHE ASP ASN ALA SEQRES 11 C 160 ASN CYS PRO SER LEU GLN ASN LYS PRO LYS MET PHE PHE SEQRES 12 C 160 ILE GLN ALA CYS ARG GLY ASP GLU THR ASP ARG GLY VAL SEQRES 13 C 160 ASP GLN GLN ASP SEQRES 1 D 112 GLY LYS GLU LYS LEU PRO LYS MET ARG LEU PRO THR ARG SEQRES 2 D 112 SER ASP MET ILE CYS GLY TYR ALA CYS LEU LYS GLY THR SEQRES 3 D 112 ALA ALA MET ARG ASN THR LYS ARG GLY SER TRP TYR ILE SEQRES 4 D 112 GLU ALA LEU ALA GLN VAL PHE SER GLU ARG ALA CYS ASP SEQRES 5 D 112 MET HIS VAL ALA ASP MET LEU VAL LYS VAL ASN ALA LEU SEQRES 6 D 112 ILE LYS ASP ARG GLU GLY TYR ALA PRO GLY THR GLU PHE SEQRES 7 D 112 HIS ARG CYS LYS GLU MET SER GLU TYR CYS SER THR LEU SEQRES 8 D 112 CYS ARG HIS LEU TYR LEU PHE PRO GLY HIS PRO PRO THR SEQRES 9 D 112 LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 F 5 ACE ASP VAL ALA ASA MODRES 3R7B ASA F 406 ASP ASPARTIC ALDEHYDE HET ACE F 402 3 HET ASA F 406 8 HETNAM ACE ACETYL GROUP HETNAM ASA ASPARTIC ALDEHYDE FORMUL 5 ACE C2 H4 O FORMUL 5 ASA C4 H7 N O3 FORMUL 6 HOH *441(H2 O) HELIX 1 1 THR A 180 PHE A 188 1 9 HELIX 2 2 GLN A 189 ALA A 191 5 3 HELIX 3 3 GLY A 221 LEU A 236 1 16 HELIX 4 4 THR A 247 GLN A 260 1 14 HELIX 5 5 LEU A 261 VAL A 266 5 6 HELIX 6 6 LEU A 293 PHE A 300 1 8 HELIX 7 7 CYS A 305 GLN A 309 5 5 HELIX 8 8 TRP B 385 ALA B 398 1 14 HELIX 9 9 HIS B 402 ARG B 417 1 16 HELIX 10 10 THR C 180 PHE C 188 1 9 HELIX 11 11 GLN C 189 ALA C 191 5 3 HELIX 12 12 GLY C 221 LEU C 236 1 16 HELIX 13 13 THR C 247 GLN C 260 1 14 HELIX 14 14 LEU C 261 THR C 267 5 7 HELIX 15 15 LEU C 293 LEU C 299 1 7 HELIX 16 16 CYS C 305 GLN C 309 5 5 HELIX 17 17 TRP D 385 ALA D 398 1 14 HELIX 18 18 HIS D 402 ARG D 417 1 16 SHEET 1 A12 ASP A 239 CYS A 244 0 SHEET 2 A12 GLY A 200 SER A 206 1 N ALA A 202 O HIS A 241 SHEET 3 A12 SER A 269 LEU A 275 1 O ALA A 273 N LEU A 203 SHEET 4 A12 LYS A 313 GLN A 318 1 O MET A 314 N CYS A 270 SHEET 5 A12 MET B 364 TYR B 368 1 O GLY B 367 N ILE A 317 SHEET 6 A12 GLU B 434 SER B 437 -1 O GLU B 434 N TYR B 368 SHEET 7 A12 GLU D 434 SER D 437 -1 O SER D 437 N TYR B 435 SHEET 8 A12 MET D 364 TYR D 368 -1 N TYR D 368 O GLU D 434 SHEET 9 A12 LYS C 313 GLN C 318 1 N PHE C 315 O GLY D 367 SHEET 10 A12 SER C 269 LEU C 275 1 N LEU C 274 O GLN C 318 SHEET 11 A12 GLY C 200 SER C 206 1 N LEU C 203 O ALA C 273 SHEET 12 A12 TYR C 238 CYS C 244 1 O HIS C 241 N ALA C 202 SHEET 1 B 3 GLY A 278 VAL A 279 0 SHEET 2 B 3 ALA A 282 TYR A 284 -1 O ALA A 282 N VAL A 279 SHEET 3 B 3 LEU A 290 GLN A 292 -1 O LEU A 291 N ILE A 283 SHEET 1 C 2 VAL A 329 ASP A 330 0 SHEET 2 C 2 ARG D 357 LEU D 358 -1 O LEU D 358 N VAL A 329 SHEET 1 D 2 ARG B 357 LEU B 358 0 SHEET 2 D 2 VAL C 329 ASP C 330 -1 O VAL C 329 N LEU B 358 SHEET 1 E 2 ARG B 378 ASN B 379 0 SHEET 2 E 2 GLY B 383 SER B 384 -1 O GLY B 383 N ASN B 379 SHEET 1 F 3 GLY C 278 VAL C 279 0 SHEET 2 F 3 ALA C 282 TYR C 284 -1 O ALA C 282 N VAL C 279 SHEET 3 F 3 LEU C 290 GLN C 292 -1 O LEU C 291 N ILE C 283 SHEET 1 G 3 GLY D 383 SER D 384 0 SHEET 2 G 3 MET D 377 ASN D 379 -1 N ASN D 379 O GLY D 383 SHEET 3 G 3 VAL F 404 ALA F 405 -1 O VAL F 404 N ARG D 378 SSBOND 1 CYS B 436 CYS D 436 1555 1555 2.12 LINK C ACE F 402 N ASP F 403 1555 1555 1.33 LINK C ALA F 405 N ASA F 406 1555 1555 1.33 CISPEP 1 ARG A 197 PRO A 198 0 -1.45 CISPEP 2 HIS B 449 PRO B 450 0 0.04 CISPEP 3 ARG C 197 PRO C 198 0 -1.76 CISPEP 4 HIS D 449 PRO D 450 0 2.08 SITE 1 AC1 15 ARG C 219 HIS C 277 GLY C 278 GLN C 318 SITE 2 AC1 15 CYS C 320 ALA D 376 MET D 377 ARG D 378 SITE 3 AC1 15 ASN D 379 THR D 380 TRP D 385 GLY D 419 SITE 4 AC1 15 TYR D 420 ALA D 421 PHE D 426 CRYST1 63.002 96.862 97.936 90.00 90.00 90.00 P 21 21 21 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 0.015873 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010324 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010211 0.00000