HEADER HYDROLASE/HYDROLASE INHIBITOR 07-MAR-13 4JJE TITLE CASPASE-3 SPECIFIC UNNATURAL AMINO ACID PEPTIDES COMPND MOL_ID: 1; COMPND 2 MOLECULE: CASPASE-3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CASP-3, APOPAIN, CYSTEINE PROTEASE CPP32, CPP-32, PROTEIN COMPND 5 YAMA, SREBP CLEAVAGE ACTIVITY 1, SCA-1, CASPASE-3 SUBUNIT P17, COMPND 6 CASPASE-3 SUBUNIT P12; COMPND 7 EC: 3.4.22.56; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: CASPASE INHIBITOR; COMPND 11 CHAIN: B; COMPND 12 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, CASPASE-3 CPP32, CPP32; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET23B; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS PROTEASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.J.VICKERS,G.E.GONZALEZ-PAEZ,D.W.WOLAN REVDAT 3 15-NOV-23 4JJE 1 SEQADV LINK ATOM REVDAT 2 19-FEB-14 4JJE 1 JRNL REVDAT 1 12-JUN-13 4JJE 0 JRNL AUTH C.J.VICKERS,G.E.GONZALEZ-PAEZ,D.W.WOLAN JRNL TITL SELECTIVE DETECTION OF CASPASE-3 VERSUS CASPASE-7 USING JRNL TITL 2 ACTIVITY-BASED PROBES WITH KEY UNNATURAL AMINO ACIDS. JRNL REF ACS CHEM.BIOL. V. 8 1558 2013 JRNL REFN ISSN 1554-8929 JRNL PMID 23614665 JRNL DOI 10.1021/CB400209W REMARK 2 REMARK 2 RESOLUTION. 1.48 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.48 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.17 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 46040 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.174 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 2330 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 42.1841 - 3.8077 0.99 2730 141 0.1520 0.1650 REMARK 3 2 3.8077 - 3.0226 1.00 2617 144 0.1400 0.1845 REMARK 3 3 3.0226 - 2.6406 1.00 2625 138 0.1518 0.1439 REMARK 3 4 2.6406 - 2.3991 1.00 2586 149 0.1482 0.1660 REMARK 3 5 2.3991 - 2.2272 1.00 2589 138 0.1438 0.1703 REMARK 3 6 2.2272 - 2.0959 1.00 2577 144 0.1424 0.1606 REMARK 3 7 2.0959 - 1.9909 1.00 2575 143 0.1405 0.1845 REMARK 3 8 1.9909 - 1.9043 1.00 2521 144 0.1431 0.1864 REMARK 3 9 1.9043 - 1.8310 1.00 2578 145 0.1368 0.1538 REMARK 3 10 1.8310 - 1.7678 1.00 2558 131 0.1402 0.1737 REMARK 3 11 1.7678 - 1.7125 1.00 2587 117 0.1567 0.2182 REMARK 3 12 1.7125 - 1.6635 1.00 2574 124 0.1644 0.2088 REMARK 3 13 1.6635 - 1.6197 1.00 2529 146 0.1619 0.1989 REMARK 3 14 1.6197 - 1.5802 1.00 2553 142 0.1704 0.2060 REMARK 3 15 1.5802 - 1.5443 1.00 2522 138 0.1896 0.2247 REMARK 3 16 1.5443 - 1.5114 0.99 2545 126 0.2074 0.2385 REMARK 3 17 1.5114 - 1.4812 0.95 2444 120 0.2421 0.2638 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.630 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.23 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.014 2051 REMARK 3 ANGLE : 1.624 2763 REMARK 3 CHIRALITY : 0.111 301 REMARK 3 PLANARITY : 0.008 362 REMARK 3 DIHEDRAL : 12.920 771 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 29 THROUGH 51 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.2931 31.4252 51.6044 REMARK 3 T TENSOR REMARK 3 T11: 0.1674 T22: 0.2073 REMARK 3 T33: 0.2194 T12: 0.0208 REMARK 3 T13: 0.0189 T23: 0.0482 REMARK 3 L TENSOR REMARK 3 L11: 0.4329 L22: 0.4215 REMARK 3 L33: 0.3543 L12: 0.0785 REMARK 3 L13: -0.0429 L23: 0.3751 REMARK 3 S TENSOR REMARK 3 S11: 0.0337 S12: 0.0990 S13: 0.1222 REMARK 3 S21: -0.0669 S22: 0.0202 S23: 0.0622 REMARK 3 S31: -0.0922 S32: -0.0962 S33: 0.0001 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 52 THROUGH 92 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.7671 16.5390 69.3205 REMARK 3 T TENSOR REMARK 3 T11: 0.2066 T22: 0.1677 REMARK 3 T33: 0.1468 T12: -0.0190 REMARK 3 T13: 0.0056 T23: 0.0377 REMARK 3 L TENSOR REMARK 3 L11: 0.7288 L22: 0.2330 REMARK 3 L33: 0.3355 L12: 0.3084 REMARK 3 L13: 0.0152 L23: 0.1938 REMARK 3 S TENSOR REMARK 3 S11: 0.0992 S12: -0.1862 S13: -0.0445 REMARK 3 S21: 0.2070 S22: 0.0328 S23: 0.1223 REMARK 3 S31: 0.0364 S32: -0.0646 S33: 0.0058 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 93 THROUGH 105 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.5168 9.5329 59.5525 REMARK 3 T TENSOR REMARK 3 T11: 0.2270 T22: 0.2245 REMARK 3 T33: 0.2735 T12: -0.0721 REMARK 3 T13: -0.0196 T23: 0.0373 REMARK 3 L TENSOR REMARK 3 L11: 0.1664 L22: 0.3115 REMARK 3 L33: 0.1686 L12: -0.0845 REMARK 3 L13: -0.0880 L23: -0.0070 REMARK 3 S TENSOR REMARK 3 S11: 0.1854 S12: 0.0044 S13: -0.2875 REMARK 3 S21: -0.1535 S22: 0.0477 S23: 0.6109 REMARK 3 S31: 0.2562 S32: -0.2595 S33: -0.0051 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 106 THROUGH 154 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.0376 14.5165 54.7120 REMARK 3 T TENSOR REMARK 3 T11: 0.1850 T22: 0.1718 REMARK 3 T33: 0.2172 T12: -0.0068 REMARK 3 T13: -0.0216 T23: 0.0081 REMARK 3 L TENSOR REMARK 3 L11: 0.3367 L22: 0.3248 REMARK 3 L33: 0.4309 L12: 0.1293 REMARK 3 L13: -0.3766 L23: -0.1097 REMARK 3 S TENSOR REMARK 3 S11: 0.0751 S12: 0.1362 S13: -0.1339 REMARK 3 S21: -0.0910 S22: -0.0296 S23: 0.1786 REMARK 3 S31: 0.1976 S32: -0.1008 S33: 0.0005 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 155 THROUGH 191 ) REMARK 3 ORIGIN FOR THE GROUP (A): 33.1848 16.1224 52.7845 REMARK 3 T TENSOR REMARK 3 T11: 0.1746 T22: 0.1756 REMARK 3 T33: 0.1908 T12: 0.0024 REMARK 3 T13: -0.0233 T23: 0.0055 REMARK 3 L TENSOR REMARK 3 L11: 0.0964 L22: 0.6404 REMARK 3 L33: 0.4252 L12: 0.0538 REMARK 3 L13: -0.1493 L23: 0.1233 REMARK 3 S TENSOR REMARK 3 S11: 0.0795 S12: 0.1106 S13: -0.0423 REMARK 3 S21: 0.0111 S22: -0.0219 S23: -0.0876 REMARK 3 S31: 0.0756 S32: 0.0673 S33: 0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 192 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.0667 22.1385 61.1273 REMARK 3 T TENSOR REMARK 3 T11: 0.1644 T22: 0.1743 REMARK 3 T33: 0.1465 T12: -0.0057 REMARK 3 T13: -0.0089 T23: -0.0062 REMARK 3 L TENSOR REMARK 3 L11: 0.6776 L22: 0.2278 REMARK 3 L33: 0.5985 L12: 0.1331 REMARK 3 L13: -0.2789 L23: -0.0722 REMARK 3 S TENSOR REMARK 3 S11: 0.0801 S12: -0.0569 S13: 0.0111 REMARK 3 S21: 0.0407 S22: -0.0126 S23: 0.0108 REMARK 3 S31: -0.0365 S32: 0.0674 S33: 0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 232 THROUGH 278 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.4569 23.5902 58.3320 REMARK 3 T TENSOR REMARK 3 T11: 0.1380 T22: 0.1431 REMARK 3 T33: 0.1352 T12: -0.0013 REMARK 3 T13: -0.0103 T23: 0.0007 REMARK 3 L TENSOR REMARK 3 L11: 0.2899 L22: 0.2392 REMARK 3 L33: 0.3940 L12: -0.0762 REMARK 3 L13: 0.1742 L23: -0.3009 REMARK 3 S TENSOR REMARK 3 S11: 0.0760 S12: 0.0399 S13: -0.0492 REMARK 3 S21: 0.0445 S22: 0.0101 S23: 0.0521 REMARK 3 S31: -0.0312 S32: -0.0098 S33: 0.0010 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4JJE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-MAR-13. REMARK 100 THE DEPOSITION ID IS D_1000078120. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JAN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03317 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46048 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.390 REMARK 200 RESOLUTION RANGE LOW (A) : 42.170 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 36.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05M SODIUM CITRATE PH 5.5, 14% PEG REMARK 280 6000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K 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 34.05500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 42.16700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 48.04400 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 34.05500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 42.16700 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 48.04400 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 34.05500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 42.16700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 48.04400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 34.05500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 42.16700 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 48.04400 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: DIMERIC 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 400 REMARK 400 COMPOUND REMARK 400 THE 2,6, DIMETHYLBENZOIC ACID FRAGMENT IN RESIDUE 1U8 OF THE REMARK 400 CASPASE INHIBITOR IS REMOVED DURING COVALENT ATTACHMENT TO CASPASE REMARK 400 REMARK 400 THE ACE-1MH-ASP-B3L-HLX-1U8 IS PEPTIDE-LIKE, A MEMBER OF CASPASE REMARK 400 INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: ACE-1MH-ASP-B3L-HLX-1U8 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 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 LEU A 279 REMARK 465 HIS A 280 REMARK 465 HIS A 281 REMARK 465 HIS A 282 REMARK 465 HIS A 283 REMARK 465 HIS A 284 REMARK 465 HIS A 285 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 LYS A 210 CG CD CE NZ REMARK 470 LYS A 224 CG CD CE NZ 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 LYS A 57 CD REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD1 ASP A 34 O HOH A 617 2.18 REMARK 500 O HOH A 590 O HOH A 708 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 1MH B 402 C - N - CA ANGL. DEV. = -17.6 DEGREES REMARK 500 B3L B 404 O - C - N ANGL. DEV. = 12.6 DEGREES 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 ARG A 144 152.05 -49.45 REMARK 500 LYS A 229 -34.07 -135.63 REMARK 500 B3L B 404 -109.49 -131.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP B 403 B3L B 404 77.40 REMARK 500 B3L B 404 HLX B 405 -146.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 B3L B 404 17.19 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 B OF CASPASE INHIBITOR REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JJ7 RELATED DB: PDB REMARK 900 CASPASE-8 IN COMPLEX WITH CASPASE-3 SPECIFIC UNNATURAL AMINO ACID REMARK 900 PEPTIDE REMARK 900 RELATED ID: 4JJ8 RELATED DB: PDB REMARK 900 CASPASE-7 IN COMPLEX WITH CASPASE-3 SPECIFIC UNNATURAL AMINO ACID REMARK 900 PEPTIDE DBREF 4JJE A 29 277 UNP P42574 CASP3_HUMAN 29 277 DBREF 4JJE B 401 406 PDB 4JJE 4JJE 401 406 SEQADV 4JJE GLN A 278 UNP P42574 EXPRESSION TAG SEQADV 4JJE LEU A 279 UNP P42574 EXPRESSION TAG SEQADV 4JJE HIS A 280 UNP P42574 EXPRESSION TAG SEQADV 4JJE HIS A 281 UNP P42574 EXPRESSION TAG SEQADV 4JJE HIS A 282 UNP P42574 EXPRESSION TAG SEQADV 4JJE HIS A 283 UNP P42574 EXPRESSION TAG SEQADV 4JJE HIS A 284 UNP P42574 EXPRESSION TAG SEQADV 4JJE HIS A 285 UNP P42574 EXPRESSION TAG SEQRES 1 A 257 SER GLY ILE SER LEU ASP ASN SER TYR LYS MET ASP TYR SEQRES 2 A 257 PRO GLU MET GLY LEU CYS ILE ILE ILE ASN ASN LYS ASN SEQRES 3 A 257 PHE HIS LYS SER THR GLY MET THR SER ARG SER GLY THR SEQRES 4 A 257 ASP VAL ASP ALA ALA ASN LEU ARG GLU THR PHE ARG ASN SEQRES 5 A 257 LEU LYS TYR GLU VAL ARG ASN LYS ASN ASP LEU THR ARG SEQRES 6 A 257 GLU GLU ILE VAL GLU LEU MET ARG ASP VAL SER LYS GLU SEQRES 7 A 257 ASP HIS SER LYS ARG SER SER PHE VAL CYS VAL LEU LEU SEQRES 8 A 257 SER HIS GLY GLU GLU GLY ILE ILE PHE GLY THR ASN GLY SEQRES 9 A 257 PRO VAL ASP LEU LYS LYS ILE THR ASN PHE PHE ARG GLY SEQRES 10 A 257 ASP ARG CYS ARG SER LEU THR GLY LYS PRO LYS LEU PHE SEQRES 11 A 257 ILE ILE GLN ALA CYS ARG GLY THR GLU LEU ASP CYS GLY SEQRES 12 A 257 ILE GLU THR ASP SER GLY VAL ASP ASP ASP MET ALA CYS SEQRES 13 A 257 HIS LYS ILE PRO VAL GLU ALA ASP PHE LEU TYR ALA TYR SEQRES 14 A 257 SER THR ALA PRO GLY TYR TYR SER TRP ARG ASN SER LYS SEQRES 15 A 257 ASP GLY SER TRP PHE ILE GLN SER LEU CYS ALA MET LEU SEQRES 16 A 257 LYS GLN TYR ALA ASP LYS LEU GLU PHE MET HIS ILE LEU SEQRES 17 A 257 THR ARG VAL ASN ARG LYS VAL ALA THR GLU PHE GLU SER SEQRES 18 A 257 PHE SER PHE ASP ALA THR PHE HIS ALA LYS LYS GLN ILE SEQRES 19 A 257 PRO CYS ILE VAL SER MET LEU THR LYS GLU LEU TYR PHE SEQRES 20 A 257 TYR HIS GLN LEU HIS HIS HIS HIS HIS HIS SEQRES 1 B 6 ACE 1MH ASP B3L HLX 1U8 HET ACE B 401 3 HET 1MH B 402 11 HET B3L B 404 9 HET HLX B 405 9 HET 1U8 B 406 9 HETNAM ACE ACETYL GROUP HETNAM 1MH 3-PYRIDIN-3-YL-L-ALANINE HETNAM B3L (3S)-3-AMINO-5-METHYLHEXANOIC ACID HETNAM HLX 5-METHYL-L-NORLEUCINE HETNAM 1U8 (3S)-3-AMINO-5-[(2,6-DIMETHYLBENZOYL)OXY]-4- HETNAM 2 1U8 OXOPENTANOIC ACID HETSYN B3L (S)-BETA-3-HOMOLEUCINE FORMUL 2 ACE C2 H4 O FORMUL 2 1MH C8 H10 N2 O2 FORMUL 2 B3L C7 H15 N O2 FORMUL 2 HLX C7 H15 N O2 FORMUL 2 1U8 C14 H17 N O5 FORMUL 3 HOH *214(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 A 6 GLU A 84 ASN A 89 0 SHEET 2 A 6 GLU A 43 ASN A 51 1 N ASN A 51 O LYS A 88 SHEET 3 A 6 ARG A 111 LEU A 119 1 O VAL A 117 N ILE A 48 SHEET 4 A 6 LYS A 156 GLN A 161 1 O LEU A 157 N PHE A 114 SHEET 5 A 6 PHE A 193 TYR A 197 1 O LEU A 194 N PHE A 158 SHEET 6 A 6 CYS A 264 SER A 267 -1 O VAL A 266 N TYR A 195 SHEET 1 B 3 GLY A 122 GLU A 123 0 SHEET 2 B 3 ILE A 126 GLY A 129 -1 O ILE A 126 N GLU A 123 SHEET 3 B 3 GLY A 132 ASP A 135 -1 O GLY A 132 N GLY A 129 SHEET 1 C 3 GLY A 212 SER A 213 0 SHEET 2 C 3 TRP A 206 ASN A 208 -1 N ASN A 208 O GLY A 212 SHEET 3 C 3 ASP B 403 HLX B 405 -1 O B3L B 404 N ARG A 207 LINK SG CYS A 163 C9 1U8 B 406 1555 1555 2.05 LINK C ACE B 401 N 1MH B 402 1555 1555 1.33 LINK C 1MH B 402 N ASP B 403 1555 1555 1.33 LINK C ASP B 403 N B3L B 404 1555 1555 1.33 LINK C B3L B 404 N HLX B 405 1555 1555 1.31 LINK C HLX B 405 N 1U8 B 406 1555 1555 1.35 SITE 1 AC1 20 SER A 58 ARG A 64 SER A 120 HIS A 121 SITE 2 AC1 20 GLY A 122 GLN A 161 CYS A 163 TYR A 204 SITE 3 AC1 20 SER A 205 TRP A 206 ARG A 207 ASN A 208 SITE 4 AC1 20 SER A 209 LYS A 210 TRP A 214 SER A 249 SITE 5 AC1 20 PHE A 250 HOH A 694 HOH B 502 HOH B 503 CRYST1 68.110 84.334 96.088 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 0.014682 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011858 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010407 0.00000