HEADER APOPTOSIS 14-JUN-11 3SFZ TITLE CRYSTAL STRUCTURE OF FULL-LENGTH MURINE APAF-1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: APOPTOTIC PEPTIDASE ACTIVATING FACTOR 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: APAF-1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: APAF1; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7118; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: SF21 KEYWDS APOPTOSIS, CASPASE ACTIVATION, CYTOCHROME C, PROCASPASE-9, ADENINE KEYWDS 2 NUCLEOTIDE, CYTOSOL EXPDTA X-RAY DIFFRACTION AUTHOR S.ESCHENBURG,T.F.REUBOLD REVDAT 2 09-OCT-24 3SFZ 1 REMARK REVDAT 1 24-AUG-11 3SFZ 0 JRNL AUTH T.F.REUBOLD,S.WOHLGEMUTH,S.ESCHENBURG JRNL TITL CRYSTAL STRUCTURE OF FULL-LENGTH APAF-1: HOW THE DEATH JRNL TITL 2 SIGNAL IS RELAYED IN THE MITOCHONDRIAL PATHWAY OF APOPTOSIS. JRNL REF STRUCTURE V. 19 1074 2011 JRNL REFN ISSN 0969-2126 JRNL PMID 21827944 JRNL DOI 10.1016/J.STR.2011.05.013 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 40388 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.236 REMARK 3 FREE R VALUE : 0.298 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.500 REMARK 3 FREE R VALUE TEST SET COUNT : 1423 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 9015 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 122 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 68.48 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 78.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.32100 REMARK 3 B22 (A**2) : 19.16000 REMARK 3 B33 (A**2) : -18.83900 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) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.496 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.706 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.771 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.891 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 57.05 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 : CNS_TOPPAR:PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : LIG.PAR REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3SFZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1000066156. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97950 REMARK 200 MONOCHROMATOR : CHANNEL CUT ESRF MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40531 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.2600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.40500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.530 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: AB INITIO PHASING REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES, 1.4 M SODIUM MALONATE, 4% REMARK 280 V/V GAMMA-BUTYROLACTONE, PH 7.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277.0K 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 36.32500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 121.78000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 56.53500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 121.78000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.32500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 56.53500 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 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 1 REMARK 465 ASP A 2 REMARK 465 ALA A 3 REMARK 465 LYS A 4 REMARK 465 ALA A 5 REMARK 465 ARG A 6 REMARK 465 ASN A 7 REMARK 465 CYS A 8 REMARK 465 LEU A 9 REMARK 465 LEU A 10 REMARK 465 GLN A 11 REMARK 465 HIS A 12 REMARK 465 ARG A 13 REMARK 465 GLU A 14 REMARK 465 ALA A 15 REMARK 465 LEU A 16 REMARK 465 GLU A 17 REMARK 465 LYS A 18 REMARK 465 ASP A 19 REMARK 465 ILE A 20 REMARK 465 LYS A 21 REMARK 465 THR A 22 REMARK 465 SER A 23 REMARK 465 TYR A 24 REMARK 465 ILE A 25 REMARK 465 MET A 26 REMARK 465 ASP A 27 REMARK 465 HIS A 28 REMARK 465 MET A 29 REMARK 465 ILE A 30 REMARK 465 SER A 31 REMARK 465 ASN A 32 REMARK 465 GLY A 33 REMARK 465 VAL A 34 REMARK 465 LEU A 35 REMARK 465 SER A 36 REMARK 465 VAL A 37 REMARK 465 ILE A 38 REMARK 465 GLU A 39 REMARK 465 GLU A 40 REMARK 465 GLU A 41 REMARK 465 LYS A 42 REMARK 465 VAL A 43 REMARK 465 LYS A 44 REMARK 465 SER A 45 REMARK 465 GLN A 46 REMARK 465 ALA A 47 REMARK 465 THR A 48 REMARK 465 GLN A 49 REMARK 465 TYR A 50 REMARK 465 GLN A 51 REMARK 465 ARG A 52 REMARK 465 ALA A 53 REMARK 465 ALA A 54 REMARK 465 ALA A 55 REMARK 465 LEU A 56 REMARK 465 ILE A 57 REMARK 465 LYS A 58 REMARK 465 MET A 59 REMARK 465 ILE A 60 REMARK 465 LEU A 61 REMARK 465 ASN A 62 REMARK 465 LYS A 63 REMARK 465 ASP A 64 REMARK 465 ASN A 65 REMARK 465 CYS A 66 REMARK 465 ALA A 67 REMARK 465 TYR A 68 REMARK 465 ILE A 69 REMARK 465 SER A 70 REMARK 465 PHE A 71 REMARK 465 TYR A 72 REMARK 465 ASN A 73 REMARK 465 ALA A 74 REMARK 465 LEU A 75 REMARK 465 LEU A 76 REMARK 465 HIS A 77 REMARK 465 GLU A 78 REMARK 465 GLY A 79 REMARK 465 TYR A 80 REMARK 465 LYS A 81 REMARK 465 ASP A 82 REMARK 465 LEU A 83 REMARK 465 ALA A 84 REMARK 465 ALA A 85 REMARK 465 LEU A 86 REMARK 465 LEU A 87 REMARK 465 GLN A 88 REMARK 465 SER A 89 REMARK 465 GLY A 90 REMARK 465 LEU A 91 REMARK 465 PRO A 92 REMARK 465 LEU A 93 REMARK 465 VAL A 94 REMARK 465 SER A 95 REMARK 465 SER A 96 REMARK 465 SER A 97 REMARK 465 SER A 98 REMARK 465 GLY A 99 REMARK 465 LYS A 100 REMARK 465 ASP A 101 REMARK 465 LEU A 788 REMARK 465 SER A 789 REMARK 465 SER A 790 REMARK 465 GLU A 791 REMARK 465 ASP A 792 REMARK 465 PRO A 793 REMARK 465 PRO A 794 REMARK 465 GLU A 795 REMARK 465 VAL A 1170 REMARK 465 GLU A 1171 REMARK 465 GLU A 1172 REMARK 465 GLY A 1173 REMARK 465 THR A 1174 REMARK 465 ALA A 1175 REMARK 465 THR A 1176 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 O THR A 1074 N ARG A 1076 2.06 REMARK 500 O ASP A 754 N GLU A 756 2.13 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 PRO A 335 C - N - CA ANGL. DEV. = 10.4 DEGREES REMARK 500 CYS A 705 CA - CB - SG ANGL. DEV. = 9.7 DEGREES REMARK 500 CYS A 761 CA - CB - SG ANGL. DEV. = -11.2 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 ASP A 103 -139.65 179.24 REMARK 500 THR A 107 17.13 -147.97 REMARK 500 SER A 108 -30.87 69.53 REMARK 500 ARG A 111 -73.18 -48.71 REMARK 500 ARG A 122 156.57 -31.10 REMARK 500 ARG A 129 31.89 -145.21 REMARK 500 LYS A 130 -43.97 -24.51 REMARK 500 LYS A 142 12.36 -65.87 REMARK 500 ASN A 144 -128.31 79.93 REMARK 500 ARG A 169 57.44 -115.66 REMARK 500 HIS A 171 -55.03 -28.08 REMARK 500 LEU A 174 -79.64 -52.18 REMARK 500 CYS A 177 -59.49 160.55 REMARK 500 SER A 179 -35.68 -33.63 REMARK 500 GLU A 210 32.86 76.52 REMARK 500 SER A 213 140.15 80.97 REMARK 500 ARG A 215 149.13 75.49 REMARK 500 VAL A 229 -61.39 -95.33 REMARK 500 LEU A 230 -19.99 -48.89 REMARK 500 LEU A 232 50.44 -111.43 REMARK 500 ARG A 233 162.15 146.77 REMARK 500 LYS A 234 -33.14 66.95 REMARK 500 HIS A 235 50.49 -152.33 REMARK 500 ARG A 237 50.11 71.52 REMARK 500 ASP A 244 66.70 68.65 REMARK 500 ALA A 253 -15.12 178.23 REMARK 500 ASP A 255 57.00 -68.32 REMARK 500 LYS A 267 31.99 -75.45 REMARK 500 VAL A 280 87.57 -157.35 REMARK 500 LEU A 286 -162.52 -78.74 REMARK 500 ASN A 300 66.31 83.53 REMARK 500 MET A 301 -139.61 -148.77 REMARK 500 LYS A 302 43.94 -168.46 REMARK 500 LYS A 303 -42.47 73.00 REMARK 500 ASP A 305 21.79 -76.22 REMARK 500 PRO A 307 155.31 -41.53 REMARK 500 LYS A 318 24.88 43.32 REMARK 500 ARG A 337 42.43 -49.08 REMARK 500 GLN A 346 -71.55 -55.19 REMARK 500 LYS A 348 83.71 -68.05 REMARK 500 GLN A 349 0.88 -65.37 REMARK 500 ARG A 354 36.22 75.07 REMARK 500 LYS A 355 -77.71 -30.39 REMARK 500 SER A 356 -140.79 30.18 REMARK 500 TYR A 359 -114.54 -60.87 REMARK 500 TYR A 361 -73.42 -48.54 REMARK 500 GLU A 362 -87.73 -10.70 REMARK 500 GLU A 377 25.59 -64.51 REMARK 500 ASP A 378 -37.95 -135.84 REMARK 500 LYS A 398 -39.34 -36.67 REMARK 500 REMARK 500 THIS ENTRY HAS 196 RAMACHANDRAN OUTLIERS. 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 RESIDUE ADP A 1250 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GBL A 1251 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GBL A 1252 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GBL A 1253 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GBL A 1254 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GBL A 1255 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3SHF RELATED DB: PDB REMARK 900 MUTANT R265S-APAF-1 DBREF 3SFZ A 1 1249 UNP A2RRK8 A2RRK8_MOUSE 1 1249 SEQRES 1 A 1249 MET ASP ALA LYS ALA ARG ASN CYS LEU LEU GLN HIS ARG SEQRES 2 A 1249 GLU ALA LEU GLU LYS ASP ILE LYS THR SER TYR ILE MET SEQRES 3 A 1249 ASP HIS MET ILE SER ASN GLY VAL LEU SER VAL ILE GLU SEQRES 4 A 1249 GLU GLU LYS VAL LYS SER GLN ALA THR GLN TYR GLN ARG SEQRES 5 A 1249 ALA ALA ALA LEU ILE LYS MET ILE LEU ASN LYS ASP ASN SEQRES 6 A 1249 CYS ALA TYR ILE SER PHE TYR ASN ALA LEU LEU HIS GLU SEQRES 7 A 1249 GLY TYR LYS ASP LEU ALA ALA LEU LEU GLN SER GLY LEU SEQRES 8 A 1249 PRO LEU VAL SER SER SER SER GLY LYS ASP THR ASP GLY SEQRES 9 A 1249 GLY ILE THR SER PHE VAL ARG THR VAL LEU CYS GLU GLY SEQRES 10 A 1249 GLY VAL PRO GLN ARG PRO VAL ILE PHE VAL THR ARG LYS SEQRES 11 A 1249 LYS LEU VAL HIS ALA ILE GLN GLN LYS LEU TRP LYS LEU SEQRES 12 A 1249 ASN GLY GLU PRO GLY TRP VAL THR ILE TYR GLY MET ALA SEQRES 13 A 1249 GLY CYS GLY LYS SER VAL LEU ALA ALA GLU ALA VAL ARG SEQRES 14 A 1249 ASP HIS SER LEU LEU GLU GLY CYS PHE SER GLY GLY VAL SEQRES 15 A 1249 HIS TRP VAL SER ILE GLY LYS GLN ASP LYS SER GLY LEU SEQRES 16 A 1249 LEU MET LYS LEU GLN ASN LEU CYS MET ARG LEU ASP GLN SEQRES 17 A 1249 GLU GLU SER PHE SER GLN ARG LEU PRO LEU ASN ILE GLU SEQRES 18 A 1249 GLU ALA LYS ASP ARG LEU ARG VAL LEU MET LEU ARG LYS SEQRES 19 A 1249 HIS PRO ARG SER LEU LEU ILE LEU ASP ASP VAL TRP ASP SEQRES 20 A 1249 PRO TRP VAL LEU LYS ALA PHE ASP ASN GLN CYS GLN ILE SEQRES 21 A 1249 LEU LEU THR THR ARG ASP LYS SER VAL THR ASP SER VAL SEQRES 22 A 1249 MET GLY PRO LYS HIS VAL VAL PRO VAL GLU SER GLY LEU SEQRES 23 A 1249 GLY ARG GLU LYS GLY LEU GLU ILE LEU SER LEU PHE VAL SEQRES 24 A 1249 ASN MET LYS LYS GLU ASP LEU PRO ALA GLU ALA HIS SER SEQRES 25 A 1249 ILE ILE LYS GLU CYS LYS GLY SER PRO LEU VAL VAL SER SEQRES 26 A 1249 LEU ILE GLY ALA LEU LEU ARG ASP PHE PRO ASN ARG TRP SEQRES 27 A 1249 ALA TYR TYR LEU ARG GLN LEU GLN ASN LYS GLN PHE LYS SEQRES 28 A 1249 ARG ILE ARG LYS SER SER SER TYR ASP TYR GLU ALA LEU SEQRES 29 A 1249 ASP GLU ALA MET SER ILE SER VAL GLU MET LEU ARG GLU SEQRES 30 A 1249 ASP ILE LYS ASP TYR TYR THR ASP LEU SER ILE LEU GLN SEQRES 31 A 1249 LYS ASP VAL LYS VAL PRO THR LYS VAL LEU CYS VAL LEU SEQRES 32 A 1249 TRP ASP LEU GLU THR GLU GLU VAL GLU ASP ILE LEU GLN SEQRES 33 A 1249 GLU PHE VAL ASN LYS SER LEU LEU PHE CYS ASN ARG ASN SEQRES 34 A 1249 GLY LYS SER PHE CYS TYR TYR LEU HIS ASP LEU GLN VAL SEQRES 35 A 1249 ASP PHE LEU THR GLU LYS ASN ARG SER GLN LEU GLN ASP SEQRES 36 A 1249 LEU HIS ARG LYS MET VAL THR GLN PHE GLN ARG TYR TYR SEQRES 37 A 1249 GLN PRO HIS THR LEU SER PRO ASP GLN GLU ASP CYS MET SEQRES 38 A 1249 TYR TRP TYR ASN PHE LEU ALA TYR HIS MET ALA SER ALA SEQRES 39 A 1249 ASN MET HIS LYS GLU LEU CYS ALA LEU MET PHE SER LEU SEQRES 40 A 1249 ASP TRP ILE LYS ALA LYS THR GLU LEU VAL GLY PRO ALA SEQRES 41 A 1249 HIS LEU ILE HIS GLU PHE VAL ALA TYR ARG HIS ILE LEU SEQRES 42 A 1249 ASP GLU LYS ASP CYS ALA VAL CYS GLU ASN PHE GLN GLU SEQRES 43 A 1249 PHE LEU SER LEU ASN GLY HIS LEU LEU GLY ARG GLN PRO SEQRES 44 A 1249 PHE PRO ASN ILE VAL GLN LEU GLY LEU CYS GLU PRO GLU SEQRES 45 A 1249 THR SER GLU VAL TYR ARG GLN ALA LYS LEU GLN ALA LYS SEQRES 46 A 1249 GLN GLU GLY ASP THR GLY ARG LEU TYR LEU GLU TRP ILE SEQRES 47 A 1249 ASN LYS LYS THR ILE LYS ASN LEU SER ARG LEU VAL VAL SEQRES 48 A 1249 ARG PRO HIS THR ASP ALA VAL TYR HIS ALA CYS PHE SER SEQRES 49 A 1249 GLN ASP GLY GLN ARG ILE ALA SER CYS GLY ALA ASP LYS SEQRES 50 A 1249 THR LEU GLN VAL PHE LYS ALA GLU THR GLY GLU LYS LEU SEQRES 51 A 1249 LEU ASP ILE LYS ALA HIS GLU ASP GLU VAL LEU CYS CYS SEQRES 52 A 1249 ALA PHE SER SER ASP ASP SER TYR ILE ALA THR CYS SER SEQRES 53 A 1249 ALA ASP LYS LYS VAL LYS ILE TRP ASP SER ALA THR GLY SEQRES 54 A 1249 LYS LEU VAL HIS THR TYR ASP GLU HIS SER GLU GLN VAL SEQRES 55 A 1249 ASN CYS CYS HIS PHE THR ASN LYS SER ASN HIS LEU LEU SEQRES 56 A 1249 LEU ALA THR GLY SER ASN ASP PHE PHE LEU LYS LEU TRP SEQRES 57 A 1249 ASP LEU ASN GLN LYS GLU CYS ARG ASN THR MET PHE GLY SEQRES 58 A 1249 HIS THR ASN SER VAL ASN HIS CYS ARG PHE SER PRO ASP SEQRES 59 A 1249 ASP GLU LEU LEU ALA SER CYS SER ALA ASP GLY THR LEU SEQRES 60 A 1249 ARG LEU TRP ASP VAL ARG SER ALA ASN GLU ARG LYS SER SEQRES 61 A 1249 ILE ASN VAL LYS ARG PHE PHE LEU SER SER GLU ASP PRO SEQRES 62 A 1249 PRO GLU ASP VAL GLU VAL ILE VAL LYS CYS CYS SER TRP SEQRES 63 A 1249 SER ALA ASP GLY ASP LYS ILE ILE VAL ALA ALA LYS ASN SEQRES 64 A 1249 LYS VAL LEU LEU PHE ASP ILE HIS THR SER GLY LEU LEU SEQRES 65 A 1249 ALA GLU ILE HIS THR GLY HIS HIS SER THR ILE GLN TYR SEQRES 66 A 1249 CYS ASP PHE SER PRO TYR ASP HIS LEU ALA VAL ILE ALA SEQRES 67 A 1249 LEU SER GLN TYR CYS VAL GLU LEU TRP ASN ILE ASP SER SEQRES 68 A 1249 ARG LEU LYS VAL ALA ASP CYS ARG GLY HIS LEU SER TRP SEQRES 69 A 1249 VAL HIS GLY VAL MET PHE SER PRO ASP GLY SER SER PHE SEQRES 70 A 1249 LEU THR ALA SER ASP ASP GLN THR ILE ARG VAL TRP GLU SEQRES 71 A 1249 THR LYS LYS VAL CYS LYS ASN SER ALA ILE VAL LEU LYS SEQRES 72 A 1249 GLN GLU ILE ASP VAL VAL PHE GLN GLU ASN GLU THR MET SEQRES 73 A 1249 VAL LEU ALA VAL ASP ASN ILE ARG GLY LEU GLN LEU ILE SEQRES 74 A 1249 ALA GLY LYS THR GLY GLN ILE ASP TYR LEU PRO GLU ALA SEQRES 75 A 1249 GLN VAL SER CYS CYS CYS LEU SER PRO HIS LEU GLU TYR SEQRES 76 A 1249 VAL ALA PHE GLY ASP GLU ASP GLY ALA ILE LYS ILE ILE SEQRES 77 A 1249 GLU LEU PRO ASN ASN ARG VAL PHE SER SER GLY VAL GLY SEQRES 78 A 1249 HIS LYS LYS ALA VAL ARG HIS ILE GLN PHE THR ALA ASP SEQRES 79 A 1249 GLY LYS THR LEU ILE SER SER SER GLU ASP SER VAL ILE SEQRES 80 A 1249 GLN VAL TRP ASN TRP GLN THR GLY ASP TYR VAL PHE LEU SEQRES 81 A 1249 GLN ALA HIS GLN GLU THR VAL LYS ASP PHE ARG LEU LEU SEQRES 82 A 1249 GLN ASP SER ARG LEU LEU SER TRP SER PHE ASP GLY THR SEQRES 83 A 1249 VAL LYS VAL TRP ASN VAL ILE THR GLY ARG ILE GLU ARG SEQRES 84 A 1249 ASP PHE THR CYS HIS GLN GLY THR VAL LEU SER CYS ALA SEQRES 85 A 1249 ILE SER SER ASP ALA THR LYS PHE SER SER THR SER ALA SEQRES 86 A 1249 ASP LYS THR ALA LYS ILE TRP SER PHE ASP LEU LEU SER SEQRES 87 A 1249 PRO LEU HIS GLU LEU LYS GLY HIS ASN GLY CYS VAL ARG SEQRES 88 A 1249 CYS SER ALA PHE SER LEU ASP GLY ILE LEU LEU ALA THR SEQRES 89 A 1249 GLY ASP ASP ASN GLY GLU ILE ARG ILE TRP ASN VAL SER SEQRES 90 A 1249 ASP GLY GLN LEU LEU HIS SER CYS ALA PRO ILE SER VAL SEQRES 91 A 1249 GLU GLU GLY THR ALA THR HIS GLY GLY TRP VAL THR ASP SEQRES 92 A 1249 VAL CYS PHE SER PRO ASP SER LYS THR LEU VAL SER ALA SEQRES 93 A 1249 GLY GLY TYR LEU LYS TRP TRP ASN VAL ALA THR GLY ASP SEQRES 94 A 1249 SER SER GLN THR PHE TYR THR ASN GLY THR ASN LEU LYS SEQRES 95 A 1249 LYS ILE HIS VAL SER PRO ASP PHE ARG THR TYR VAL THR SEQRES 96 A 1249 VAL ASP ASN LEU GLY ILE LEU TYR ILE LEU GLN VAL LEU SEQRES 97 A 1249 GLU HET ADP A1250 27 HET GBL A1251 6 HET GBL A1252 6 HET GBL A1253 6 HET GBL A1254 6 HET GBL A1255 6 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM GBL GAMMA-BUTYROLACTONE HETSYN GBL DIHYDROFURAN-2(3H)-ONE FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 GBL 5(C4 H6 O2) FORMUL 8 HOH *122(H2 O) HELIX 1 1 SER A 108 GLY A 117 1 10 HELIX 2 2 ARG A 129 LYS A 142 1 14 HELIX 3 3 GLY A 159 VAL A 168 1 10 HELIX 4 4 ASP A 170 GLU A 175 1 6 HELIX 5 5 ASP A 191 ASP A 207 1 17 HELIX 6 6 ASN A 219 MET A 231 1 13 HELIX 7 7 ASP A 247 LYS A 252 1 6 HELIX 8 8 GLY A 287 ASN A 300 1 14 HELIX 9 9 ALA A 308 CYS A 317 1 10 HELIX 10 10 SER A 320 PHE A 334 1 15 HELIX 11 11 ARG A 337 ASN A 347 1 11 HELIX 12 12 ASP A 360 MET A 374 1 15 HELIX 13 13 ILE A 379 LEU A 386 1 8 HELIX 14 14 SER A 387 LEU A 389 5 3 HELIX 15 15 THR A 397 ASP A 405 1 9 HELIX 16 16 GLU A 407 LYS A 421 1 15 HELIX 17 17 HIS A 438 ASN A 449 1 12 HELIX 18 18 GLN A 452 ARG A 466 1 15 HELIX 19 19 ASP A 479 ALA A 494 1 16 HELIX 20 20 MET A 496 PHE A 505 1 10 HELIX 21 21 SER A 506 GLY A 518 1 13 HELIX 22 22 PRO A 519 TYR A 529 1 11 HELIX 23 23 ALA A 539 HIS A 553 1 15 HELIX 24 24 ASN A 562 CYS A 569 1 8 HELIX 25 25 SER A 574 GLN A 586 1 13 HELIX 26 26 TRP A 597 LYS A 601 5 5 HELIX 27 27 ARG A 773 ALA A 775 5 3 HELIX 28 28 THR A 911 LYS A 916 1 6 SHEET 1 A 5 VAL A 182 SER A 186 0 SHEET 2 A 5 LEU A 239 ASP A 243 1 O ILE A 241 N HIS A 183 SHEET 3 A 5 GLN A 259 THR A 264 1 O LEU A 261 N LEU A 240 SHEET 4 A 5 GLY A 148 TYR A 153 1 N VAL A 150 O ILE A 260 SHEET 5 A 5 VAL A 280 PRO A 281 1 O VAL A 280 N THR A 151 SHEET 1 B 3 VAL A 395 PRO A 396 0 SHEET 2 B 3 PHE A 433 TYR A 436 -1 O TYR A 435 N VAL A 395 SHEET 3 B 3 PHE A 425 ARG A 428 -1 N PHE A 425 O TYR A 436 SHEET 1 C 4 LEU A 609 VAL A 611 0 SHEET 2 C 4 ILE A 906 GLU A 910 -1 O ILE A 906 N VAL A 611 SHEET 3 C 4 SER A 896 SER A 901 -1 N PHE A 897 O TRP A 909 SHEET 4 C 4 VAL A 885 PHE A 890 -1 N MET A 889 O LEU A 898 SHEET 1 D 4 VAL A 618 PHE A 623 0 SHEET 2 D 4 ARG A 629 GLY A 634 -1 O ALA A 631 N CYS A 622 SHEET 3 D 4 LEU A 639 LYS A 643 -1 O PHE A 642 N ILE A 630 SHEET 4 D 4 LYS A 649 ILE A 653 -1 O LEU A 650 N VAL A 641 SHEET 1 E 4 VAL A 660 PHE A 665 0 SHEET 2 E 4 TYR A 671 SER A 676 -1 O ALA A 673 N ALA A 664 SHEET 3 E 4 LYS A 680 ASP A 685 -1 O LYS A 682 N THR A 674 SHEET 4 E 4 LEU A 691 ASP A 696 -1 O VAL A 692 N ILE A 683 SHEET 1 F 4 VAL A 702 PHE A 707 0 SHEET 2 F 4 LEU A 715 SER A 720 -1 O ALA A 717 N HIS A 706 SHEET 3 F 4 LEU A 725 ASP A 729 -1 O TRP A 728 N LEU A 716 SHEET 4 F 4 CYS A 735 MET A 739 -1 O ARG A 736 N LEU A 727 SHEET 1 G 4 VAL A 746 PHE A 751 0 SHEET 2 G 4 LEU A 757 SER A 762 -1 O CYS A 761 N HIS A 748 SHEET 3 G 4 THR A 766 ASP A 771 -1 O TRP A 770 N LEU A 758 SHEET 4 G 4 GLU A 777 ASN A 782 -1 O ILE A 781 N LEU A 767 SHEET 1 H 3 LYS A 812 ALA A 817 0 SHEET 2 H 3 LYS A 820 ASP A 825 -1 O LYS A 820 N ALA A 817 SHEET 3 H 3 LEU A 831 HIS A 836 -1 O LEU A 832 N LEU A 823 SHEET 1 I 4 TYR A 845 PHE A 848 0 SHEET 2 I 4 LEU A 854 ALA A 858 -1 O VAL A 856 N ASP A 847 SHEET 3 I 4 VAL A 864 ASN A 868 -1 O TRP A 867 N ALA A 855 SHEET 4 I 4 LEU A 873 CYS A 878 -1 O CYS A 878 N VAL A 864 SHEET 1 J 4 LEU A 922 GLN A 931 0 SHEET 2 J 4 GLU A 934 ASP A 941 -1 O LEU A 938 N ASP A 927 SHEET 3 J 4 LEU A 946 GLY A 951 -1 O ILE A 949 N VAL A 937 SHEET 4 J 4 ILE A 956 LEU A 959 -1 O ASP A 957 N LEU A 948 SHEET 1 K 4 VAL A 964 LEU A 969 0 SHEET 2 K 4 TYR A 975 ASP A 980 -1 O GLY A 979 N CYS A 966 SHEET 3 K 4 LYS A 986 GLU A 989 -1 O ILE A 988 N VAL A 976 SHEET 4 K 4 PHE A 996 SER A 998 -1 O SER A 997 N ILE A 987 SHEET 1 L 4 ILE A1009 PHE A1011 0 SHEET 2 L 4 LEU A1018 SER A1021 -1 O ILE A1019 N GLN A1010 SHEET 3 L 4 ILE A1027 TRP A1030 -1 O GLN A1028 N SER A1020 SHEET 4 L 4 TYR A1037 VAL A1038 -1 O VAL A1038 N VAL A1029 SHEET 1 M 4 VAL A1047 LEU A1052 0 SHEET 2 M 4 ARG A1057 SER A1062 -1 O TRP A1061 N ASP A1049 SHEET 3 M 4 THR A1066 ASN A1071 -1 O LYS A1068 N SER A1060 SHEET 4 M 4 ARG A1079 THR A1082 -1 O PHE A1081 N VAL A1067 SHEET 1 N 3 CYS A1091 ILE A1093 0 SHEET 2 N 3 SER A1101 THR A1103 -1 O SER A1102 N ALA A1092 SHEET 3 N 3 ILE A1111 TRP A1112 -1 O TRP A1112 N SER A1101 SHEET 1 O 3 VAL A1130 PHE A1135 0 SHEET 2 O 3 LEU A1141 ASP A1146 -1 O GLY A1145 N CYS A1132 SHEET 3 O 3 ILE A1153 ASN A1155 -1 O TRP A1154 N LEU A1142 SHEET 1 P 3 ASP A1183 PHE A1186 0 SHEET 2 P 3 LEU A1193 ALA A1196 -1 O VAL A1194 N CYS A1185 SHEET 3 P 3 LEU A1200 TRP A1202 -1 O LYS A1201 N SER A1195 SHEET 1 Q 3 HIS A1225 VAL A1226 0 SHEET 2 Q 3 TYR A1233 VAL A1236 -1 O VAL A1234 N HIS A1225 SHEET 3 Q 3 LEU A1242 LEU A1245 -1 O LEU A1245 N TYR A1233 SSBOND 1 CYS A 633 CYS A 663 1555 1555 2.09 SSBOND 2 CYS A 675 CYS A 705 1555 1555 2.07 SSBOND 3 CYS A 704 CYS A 749 1555 1555 2.07 SSBOND 4 CYS A 761 CYS A 804 1555 1555 2.05 SSBOND 5 CYS A 803 CYS A 846 1555 1555 2.06 CISPEP 1 GLN A 558 PRO A 559 0 0.05 SITE 1 AC1 16 PRO A 123 ILE A 125 VAL A 127 ARG A 129 SITE 2 AC1 16 ALA A 156 GLY A 157 GLY A 159 LYS A 160 SITE 3 AC1 16 SER A 161 VAL A 162 PRO A 321 LEU A 322 SITE 4 AC1 16 SER A 325 PHE A 425 HIS A 438 HOH A1339 SITE 1 AC2 4 SER A 387 THR A 446 LEU A 453 HIS A 457 SITE 1 AC3 4 ASP A 191 HIS A 521 HIS A 524 ALA A 528 SITE 1 AC4 2 LYS A 189 ASP A 191 SITE 1 AC5 4 ASN A 551 CYS A 569 TYR A1215 ASN A1217 SITE 1 AC6 2 LEU A 651 ASP A 652 CRYST1 72.650 113.070 243.560 90.00 90.00 90.00 P 21 21 21 4 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 0.013765 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008844 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004106 0.00000