PDB Short entry for 3UW5 HEADER APOPTOSIS INHIBITOR 30-NOV-11 3UW5 TITLE CRYSTAL STRUCTURE OF THE BIR DOMAIN OF MLIAP BOUND TO GDC0152 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACULOVIRAL IAP REPEAT-CONTAINING PROTEIN 7, BACULOVIRAL COMPND 3 IAP REPEAT-CONTAINING PROTEIN 4; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: BIR DOMAIN 63-179; COMPND 6 SYNONYM: KIDNEY INHIBITOR OF APOPTOSIS PROTEIN, KIAP, LIVIN, MELANOMA COMPND 7 INHIBITOR OF APOPTOSIS PROTEIN, ML-IAP, RING FINGER PROTEIN 50, E3 COMPND 8 UBIQUITIN-PROTEIN LIGASE XIAP, IAP-LIKE PROTEIN, ILP, HILP, INHIBITOR COMPND 9 OF APOPTOSIS PROTEIN 3, IAP-3, HIAP-3, HIAP3, X-LINKED INHIBITOR OF COMPND 10 APOPTOSIS PROTEIN, X-LINKED IAP; COMPND 11 ENGINEERED: YES; COMPND 12 MUTATION: YES; COMPND 13 MOL_ID: 2; COMPND 14 MOLECULE: GDC-0152; COMPND 15 CHAIN: Z, Y; COMPND 16 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: BIRC7, KIAP, LIVIN, MLIAP, RNF50, UNQ5800/PRO19607/PRO21344, SOURCE 6 API3, BIRC4, IAP3, XIAP; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET15B; SOURCE 12 MOL_ID: 2; SOURCE 13 SYNTHETIC: YES; SOURCE 14 OTHER_DETAILS: SYNTHETIC MIMETIC KEYWDS APOPTOSIS INHIBITOR, BIR DOMAIN EXPDTA X-RAY DIFFRACTION AUTHOR B.MAURER,S.G.HYMOWITZ REVDAT 4 02-AUG-17 3UW5 1 SOURCE REMARK REVDAT 3 23-MAY-12 3UW5 1 JRNL REVDAT 2 28-MAR-12 3UW5 1 JRNL REVDAT 1 22-FEB-12 3UW5 0 JRNL AUTH J.A.FLYGARE,M.BERESINI,N.BUDHA,H.CHAN,I.T.CHAN,S.CHEETI, JRNL AUTH 2 F.COHEN,K.DESHAYES,K.DOERNER,S.G.ECKHARDT,L.O.ELLIOTT, JRNL AUTH 3 B.FENG,M.C.FRANKLIN,S.F.REISNER,L.GAZZARD,J.HALLADAY, JRNL AUTH 4 S.G.HYMOWITZ,H.LA,P.LORUSSO,B.MAURER,L.MURRAY,E.PLISE, JRNL AUTH 5 C.QUAN,J.P.STEPHAN,S.G.YOUNG,J.TOM,V.TSUI,J.UM, JRNL AUTH 6 E.VARFOLOMEEV,D.VUCIC,A.J.WAGNER,H.J.WALLWEBER,L.WANG, JRNL AUTH 7 J.WARE,Z.WEN,H.WONG,J.M.WONG,M.WONG,S.WONG,R.YU,K.ZOBEL, JRNL AUTH 8 W.J.FAIRBROTHER JRNL TITL DISCOVERY OF A POTENT SMALL-MOLECULE ANTAGONIST OF INHIBITOR JRNL TITL 2 OF APOPTOSIS (IAP) PROTEINS AND CLINICAL CANDIDATE FOR THE JRNL TITL 3 TREATMENT OF CANCER (GDC-0152). JRNL REF J.MED.CHEM. V. 55 4101 2012 JRNL REFN ISSN 0022-2623 JRNL PMID 22413863 JRNL DOI 10.1021/JM300060K REMARK 2 REMARK 2 RESOLUTION. 1.71 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.71 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 31303 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) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.166 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1557 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) : 1.71 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1955 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.1880 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.2170 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1539 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 189 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.94 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.74000 REMARK 3 B22 (A**2) : -0.74000 REMARK 3 B33 (A**2) : 1.48000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.070 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.042 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.274 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.965 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1628 ; 0.006 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 1088 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2208 ; 1.138 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2604 ; 0.802 ; 3.005 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 182 ; 4.736 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 79 ;31.245 ;22.911 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 222 ;12.182 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;11.233 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 205 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1802 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 373 ; 0.001 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 78 A 167 REMARK 3 RESIDUE RANGE : B 78 B 169 REMARK 3 ORIGIN FOR THE GROUP (A): 81.3186 63.9912 36.1251 REMARK 3 T TENSOR REMARK 3 T11: 0.0036 T22: 0.0145 REMARK 3 T33: 0.0427 T12: 0.0021 REMARK 3 T13: 0.0095 T23: -0.0036 REMARK 3 L TENSOR REMARK 3 L11: 0.5455 L22: 1.3694 REMARK 3 L33: 2.1807 L12: 0.1116 REMARK 3 L13: -0.3496 L23: -1.0159 REMARK 3 S TENSOR REMARK 3 S11: 0.0163 S12: 0.0517 S13: -0.0181 REMARK 3 S21: -0.0214 S22: -0.0142 S23: 0.0057 REMARK 3 S31: -0.0093 S32: -0.0236 S33: -0.0021 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 3UW5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-DEC-11. REMARK 100 THE DEPOSITION ID IS D_1000069283. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUL-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97946 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31343 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.710 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 (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.71 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.77 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.34600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT 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 (%): 52.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN AT 25 MG/ML IN 10 MM MES WAS REMARK 280 MIXED WITH PEPTIDE (AVPW)N A 1:2 PROTEIN/PEPTIDE RATIO. THE REMARK 280 MLIAP PEPTIDE COMPLEX WAS MIXED WITH CRYSTALLIZATION WELL REMARK 280 SOLUTION (100 MM BIS TRIS(HYDROXYMETHYL)AMINOMETHANE (TRIS), PH REMARK 280 6; 200 MM LITHIUM SULFATE; 20 25% (W/V) POLY(ETHYLENE GLYCOL) REMARK 280 3350) IN A RATIO OF 1 UL OF PROTEIN COMPLEX TO 1 UL OF WELL REMARK 280 SOLUTION, VAPOR DIFFUSION, TEMPERATURE 292K, PH 6.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 36.73300 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 43.69800 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 43.69800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 18.36650 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 43.69800 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 43.69800 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 55.09950 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 43.69800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.69800 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 18.36650 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 43.69800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.69800 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 55.09950 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 36.73300 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, Z 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, Y 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B 49 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 THE GDC0152 IS PEPTIDE-LIKE, A MEMBER OF INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: GDC0152 REMARK 400 CHAIN: Z, Y 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 GLY A 57 REMARK 465 SER A 58 REMARK 465 HIS A 59 REMARK 465 MET A 60 REMARK 465 LEU A 61 REMARK 465 GLU A 62 REMARK 465 THR A 63 REMARK 465 GLU A 64 REMARK 465 GLU A 65 REMARK 465 GLU A 66 REMARK 465 GLU A 67 REMARK 465 GLU A 68 REMARK 465 GLU A 69 REMARK 465 GLY A 70 REMARK 465 ALA A 71 REMARK 465 GLY A 72 REMARK 465 ALA A 73 REMARK 465 THR A 74 REMARK 465 LEU A 75 REMARK 465 SER A 76 REMARK 465 ARG A 77 REMARK 465 LEU A 168 REMARK 465 THR A 169 REMARK 465 HIS A 170 REMARK 465 SER A 171 REMARK 465 LEU A 172 REMARK 465 GLY B 57 REMARK 465 SER B 58 REMARK 465 HIS B 59 REMARK 465 MET B 60 REMARK 465 LEU B 61 REMARK 465 GLU B 62 REMARK 465 THR B 63 REMARK 465 GLU B 64 REMARK 465 GLU B 65 REMARK 465 GLU B 66 REMARK 465 GLU B 67 REMARK 465 GLU B 68 REMARK 465 GLU B 69 REMARK 465 GLY B 70 REMARK 465 ALA B 71 REMARK 465 GLY B 72 REMARK 465 ALA B 73 REMARK 465 THR B 74 REMARK 465 LEU B 75 REMARK 465 SER B 76 REMARK 465 ARG B 77 REMARK 465 HIS B 170 REMARK 465 SER B 171 REMARK 465 LEU B 172 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 GLN A 119 -148.75 -85.55 REMARK 500 GLN B 119 -152.19 -89.79 REMARK 500 ASP B 120 34.48 -99.92 REMARK 500 TYR B 128 -11.46 77.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 144 NE2 REMARK 620 2 CYS B 124 SG 98.4 REMARK 620 3 CYS B 151 SG 106.6 116.7 REMARK 620 4 CYS B 127 SG 120.5 107.8 107.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 144 NE2 REMARK 620 2 CYS A 151 SG 106.8 REMARK 620 3 CYS A 127 SG 118.0 108.5 REMARK 620 4 CYS A 124 SG 100.0 116.9 106.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN Y OF GDC-0152 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN Z OF GDC-0152 DBREF 3UW5 A 63 159 UNP Q96CA5 BIRC7_HUMAN 63 159 DBREF 3UW5 A 160 172 UNP P98170 XIAP_HUMAN 336 348 DBREF 3UW5 B 63 159 UNP Q96CA5 BIRC7_HUMAN 63 159 DBREF 3UW5 B 160 172 UNP P98170 XIAP_HUMAN 336 348 DBREF 3UW5 Z 1 4 PDB 3UW5 3UW5 1 4 DBREF 3UW5 Y 1 4 PDB 3UW5 3UW5 1 4 SEQADV 3UW5 GLY A 57 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 SER A 58 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 HIS A 59 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 MET A 60 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 LEU A 61 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 GLU A 62 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 GLY A 150 UNP Q96CA5 SER 150 ENGINEERED MUTATION SEQADV 3UW5 GLY B 57 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 SER B 58 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 HIS B 59 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 MET B 60 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 LEU B 61 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 GLU B 62 UNP Q96CA5 EXPRESSION TAG SEQADV 3UW5 GLY B 150 UNP Q96CA5 SER 150 ENGINEERED MUTATION SEQRES 1 A 116 GLY SER HIS MET LEU GLU THR GLU GLU GLU GLU GLU GLU SEQRES 2 A 116 GLY ALA GLY ALA THR LEU SER ARG GLY PRO ALA PHE PRO SEQRES 3 A 116 GLY MET GLY SER GLU GLU LEU ARG LEU ALA SER PHE TYR SEQRES 4 A 116 ASP TRP PRO LEU THR ALA GLU VAL PRO PRO GLU LEU LEU SEQRES 5 A 116 ALA ALA ALA GLY PHE PHE HIS THR GLY HIS GLN ASP LYS SEQRES 6 A 116 VAL ARG CYS PHE PHE CYS TYR GLY GLY LEU GLN SER TRP SEQRES 7 A 116 LYS ARG GLY ASP ASP PRO TRP THR GLU HIS ALA LYS TRP SEQRES 8 A 116 PHE PRO GLY CYS GLN PHE LEU LEU ARG SER LYS GLY GLN SEQRES 9 A 116 GLU TYR ILE ASN ASN ILE HIS LEU THR HIS SER LEU SEQRES 1 B 116 GLY SER HIS MET LEU GLU THR GLU GLU GLU GLU GLU GLU SEQRES 2 B 116 GLY ALA GLY ALA THR LEU SER ARG GLY PRO ALA PHE PRO SEQRES 3 B 116 GLY MET GLY SER GLU GLU LEU ARG LEU ALA SER PHE TYR SEQRES 4 B 116 ASP TRP PRO LEU THR ALA GLU VAL PRO PRO GLU LEU LEU SEQRES 5 B 116 ALA ALA ALA GLY PHE PHE HIS THR GLY HIS GLN ASP LYS SEQRES 6 B 116 VAL ARG CYS PHE PHE CYS TYR GLY GLY LEU GLN SER TRP SEQRES 7 B 116 LYS ARG GLY ASP ASP PRO TRP THR GLU HIS ALA LYS TRP SEQRES 8 B 116 PHE PRO GLY CYS GLN PHE LEU LEU ARG SER LYS GLY GLN SEQRES 9 B 116 GLU TYR ILE ASN ASN ILE HIS LEU THR HIS SER LEU SEQRES 1 Z 4 MAA CHG PRO 0DQ SEQRES 1 Y 4 MAA CHG PRO 0DQ MODRES 3UW5 MAA Z 1 ALA N-METHYL-L-ALANINE MODRES 3UW5 MAA Y 1 ALA N-METHYL-L-ALANINE HET MAA Z 1 6 HET CHG Z 2 10 HET 0DQ Z 4 12 HET MAA Y 1 6 HET CHG Y 2 10 HET 0DQ Y 4 12 HET ZN A1001 1 HET SO4 A 205 5 HET ZN B1001 1 HET SO4 B 206 5 HETNAM MAA N-METHYL-L-ALANINE HETNAM CHG CYCLOHEXYL-GLYCINE HETNAM 0DQ 4-PHENYL-1,2,3-THIADIAZOL-5-AMINE HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION FORMUL 3 MAA 2(C4 H9 N O2) FORMUL 3 CHG 2(C8 H15 N O2) FORMUL 3 0DQ 2(C8 H7 N3 S) FORMUL 5 ZN 2(ZN 2+) FORMUL 6 SO4 2(O4 S 2-) FORMUL 9 HOH *189(H2 O) HELIX 1 1 PHE A 81 GLY A 85 5 5 HELIX 2 2 SER A 86 SER A 93 1 8 HELIX 3 3 PHE A 94 TRP A 97 5 4 HELIX 4 4 PRO A 104 ALA A 111 1 8 HELIX 5 5 ASP A 139 PHE A 148 1 10 HELIX 6 6 CYS A 151 HIS A 167 1 17 HELIX 7 7 PHE B 81 GLY B 85 5 5 HELIX 8 8 SER B 86 SER B 93 1 8 HELIX 9 9 PHE B 94 TRP B 97 5 4 HELIX 10 10 PRO B 104 ALA B 111 1 8 HELIX 11 11 ASP B 139 PHE B 148 1 10 HELIX 12 12 CYS B 151 GLY B 159 1 9 HELIX 13 13 GLY B 159 THR B 169 1 11 SHEET 1 A 3 PHE A 113 HIS A 115 0 SHEET 2 A 3 VAL A 122 CYS A 124 -1 O ARG A 123 N PHE A 114 SHEET 3 A 3 GLY A 130 LEU A 131 -1 O LEU A 131 N VAL A 122 SHEET 1 B 3 PHE B 113 HIS B 115 0 SHEET 2 B 3 VAL B 122 CYS B 124 -1 O ARG B 123 N PHE B 114 SHEET 3 B 3 GLY B 130 LEU B 131 -1 O LEU B 131 N VAL B 122 LINK C MAA Z 1 N CHG Z 2 1555 1555 1.35 LINK C CHG Z 2 N PRO Z 3 1555 1555 1.35 LINK C PRO Z 3 N25 0DQ Z 4 1555 1555 1.35 LINK C MAA Y 1 N CHG Y 2 1555 1555 1.35 LINK C CHG Y 2 N PRO Y 3 1555 1555 1.36 LINK C PRO Y 3 N25 0DQ Y 4 1555 1555 1.35 LINK NE2 HIS B 144 ZN ZN B1001 1555 1555 2.09 LINK NE2 HIS A 144 ZN ZN A1001 1555 1555 2.09 LINK SG CYS B 124 ZN ZN B1001 1555 1555 2.31 LINK SG CYS A 151 ZN ZN A1001 1555 1555 2.32 LINK SG CYS A 127 ZN ZN A1001 1555 1555 2.32 LINK SG CYS B 151 ZN ZN B1001 1555 1555 2.33 LINK SG CYS A 124 ZN ZN A1001 1555 1555 2.33 LINK SG CYS B 127 ZN ZN B1001 1555 1555 2.33 SITE 1 AC1 4 CYS A 124 CYS A 127 HIS A 144 CYS A 151 SITE 1 AC2 4 ARG A 123 HOH A 210 ARG B 136 HOH B 196 SITE 1 AC3 4 CYS B 124 CYS B 127 HIS B 144 CYS B 151 SITE 1 AC4 8 GLY B 117 HIS B 118 GLN B 119 LYS B 121 SITE 2 AC4 8 HOH B 175 HOH B 180 HOH B 201 HOH B 203 SITE 1 AC5 16 GLU A 106 LEU A 107 LYS B 121 VAL B 122 SITE 2 AC5 16 ARG B 123 GLY B 130 LEU B 131 GLN B 132 SITE 3 AC5 16 SER B 133 TRP B 134 ASP B 138 GLU B 143 SITE 4 AC5 16 TRP B 147 HOH B 202 HOH Y 123 HOH Y 139 SITE 1 AC6 12 VAL A 122 ARG A 123 GLY A 130 LEU A 131 SITE 2 AC6 12 GLN A 132 SER A 133 TRP A 134 ASP A 138 SITE 3 AC6 12 GLU A 143 TRP A 147 ARG B 136 HOH Z 160 CRYST1 87.396 87.396 73.466 90.00 90.00 90.00 P 41 21 2 16 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 0.011442 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011442 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013612 0.00000