HEADER LIGASE 24-APR-08 2VSL TITLE CRYSTAL STRUCTURE OF XIAP BIR3 WITH A BIVALENT SMAC MIMETIC COMPND MOL_ID: 1; COMPND 2 MOLECULE: BACULOVIRAL IAP REPEAT-CONTAINING PROTEIN 4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BIR3 DOMAIN, RESIDUES 250-345; COMPND 5 SYNONYM: XIAP, E3 UBIQUITIN-PROTEIN LIGASE XIAP, INHIBITOR OF COMPND 6 APOPTOSIS PROTEIN 3, X- LINKED INHIBITOR OF APOPTOSIS PROTEIN, X- COMPND 7 LINKED IAP, IAP-LIKE PROTEIN, HILP; COMPND 8 EC: 6.3.2.-; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: PEPTIDE (MAA-LYS-PRO-PHE); COMPND 12 CHAIN: B; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET28; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 12 ORGANISM_TAXID: 32630 KEYWDS ZINC-FINGER, POLYMORPHISM, SMAC MIMETIC, METAL-BINDING, UBL KEYWDS 2 CONJUGATION PATHWAY, THIOL PROTEASE INHIBITOR, PHOSPHOPROTEIN, UBL KEYWDS 3 CONJUGATION, PROTEASE INHIBITOR, BIR3, ZINC, XIAP, LIGASE, KEYWDS 4 APOPTOSIS, CYTOPLASM, HYDROLASE INHIBITOR EXPDTA X-RAY DIFFRACTION AUTHOR J.L.MEAGHER,J.A.STUCKEY REVDAT 6 13-NOV-24 2VSL 1 REMARK REVDAT 5 01-MAY-24 2VSL 1 REMARK LINK REVDAT 4 28-DEC-16 2VSL 1 SOURCE REMARK VERSN MODRES REVDAT 4 2 1 HETNAM HETSYN FORMUL SITE REVDAT 3 24-FEB-09 2VSL 1 VERSN REVDAT 2 16-SEP-08 2VSL 1 JRNL REMARK REVDAT 1 02-SEP-08 2VSL 0 JRNL AUTH Z.NIKOLOVSKA-COLESKA,J.L.MEAGHER,S.JIANG,C.Y.YANG,S.QIU, JRNL AUTH 2 P.P.ROLLER,J.A.STUCKEY,S.WANG JRNL TITL INTERACTION OF A CYCLIC, BIVALENT SMAC MIMETIC WITH THE JRNL TITL 2 X-LINKED INHIBITOR OF APOPTOSIS PROTEIN. JRNL REF BIOCHEMISTRY V. 47 9811 2008 JRNL REFN ISSN 0006-2960 JRNL PMID 18717598 JRNL DOI 10.1021/BI800785Y REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1764553.240 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 10423 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1077 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1514 REMARK 3 BIN R VALUE (WORKING SET) : 0.2440 REMARK 3 BIN FREE R VALUE : 0.2790 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 176 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.021 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 817 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 60 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.26 REMARK 3 ESD FROM SIGMAA (A) : 0.17 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.28 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.22 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.100 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.740 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.510 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.550 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.270 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.550 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.39 REMARK 3 BSOL : 47.45 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 : ION.PARAM REMARK 3 PARAMETER FILE 2 : WATER.PARAM REMARK 3 PARAMETER FILE 3 : PEG.PARAM REMARK 3 PARAMETER FILE 4 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : ION.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : PEG.TOP REMARK 3 TOPOLOGY FILE 4 : PROTEIN_REP.TOP. REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE B CHAIN IS A CYCLIC DIMERIC PEPTIDE REMARK 3 WITH HALF OF IT IN THE ASYMMETRIC UNIT. THE FULL STRUCTURE IS REMARK 3 GENERATED VIA CRYSTALLOGRAPHIC TWO-FOLD AXIS. REMARK 4 REMARK 4 2VSL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-APR-08. REMARK 100 THE DEPOSITION ID IS D_1290035878. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-NOV-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 32-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.96859 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10431 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 29.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 14.30 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.70 REMARK 200 R MERGE FOR SHELL (I) : 0.19000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 20.00 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: PREVIOUSLY SOLVED, UNPUBLISHED STRUCTURE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4 M NACL, 5% PEG 6000, PH 7.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 51.23900 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 51.23900 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 32.60900 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 51.23900 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 51.23900 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 32.60900 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 51.23900 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 51.23900 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 32.60900 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 51.23900 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 51.23900 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 32.60900 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 51.23900 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 51.23900 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 32.60900 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 51.23900 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 51.23900 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 32.60900 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 51.23900 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 51.23900 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 32.60900 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 51.23900 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 51.23900 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 32.60900 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 OE1 GLU A 337 O HOH A 2053 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 C3 15P A 1346 C3 15P A 1346 7556 1.09 REMARK 500 NZ LYS B 2 C PHE B 4 7556 1.18 REMARK 500 O HOH A 2021 O HOH A 2032 3555 2.10 REMARK 500 NZ LYS B 2 O PHE B 4 7556 2.17 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 HIS A 302 -61.30 -94.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2056 DISTANCE = 6.02 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 15P A 1346 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 A1347 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 300 SG REMARK 620 2 CYS A 303 SG 110.9 REMARK 620 3 HIS A 320 NE2 104.5 113.0 REMARK 620 4 CYS A 327 SG 113.1 108.1 107.2 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 15P A 1346 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1347 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN B OF PEPTIDE (MAA-LYS-PRO REMARK 800 -PHE) REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1F9X RELATED DB: PDB REMARK 900 AVERAGE NMR SOLUTION STRUCTURE OF THE BIR- 3 DOMAIN OF XIAP REMARK 900 RELATED ID: 1KMC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CASPASE-7 / XIAP- BIR2 COMPLEX REMARK 900 RELATED ID: 1G73 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SMAC BOUND TO XIAP- BIR3 DOMAIN REMARK 900 RELATED ID: 1I4O RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE XIAP/CASPASE-7 COMPLEX REMARK 900 RELATED ID: 2JK7 RELATED DB: PDB REMARK 900 XIAP BIR3 BOUND TO A SMAC MIMETIC REMARK 900 RELATED ID: 1TFQ RELATED DB: PDB REMARK 900 NMR STRUCTURE OF AN ANTAGONISTS OF THE XIAP-CASPASE-9INTERACTION REMARK 900 COMPLEXED TO THE BIR3 DOMAIN OF XIAP REMARK 900 RELATED ID: 1TFT RELATED DB: PDB REMARK 900 NMR STRUCTURE OF AN ANTAGONISTS OF THE XIAP-CASPASE-9INTERACTION REMARK 900 COMPLEXED TO THE BIR3 DOMAIN OF XIAP REMARK 900 RELATED ID: 1C9Q RELATED DB: PDB REMARK 900 AVERAGE NMR SOLUTION STRUCTURE OF THE BIR- 2 DOMAIN OF XIAP REMARK 900 RELATED ID: 1NW9 RELATED DB: PDB REMARK 900 STRUCTURE OF CASPASE-9 IN AN INHIBITORY COMPLEX WITH XIAP-BIR3 REMARK 900 RELATED ID: 1I3O RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF XIAP- BIR2 AND CASPASE 3 REMARK 900 RELATED ID: 1G3F RELATED DB: PDB REMARK 900 NMR STRUCTURE OF A 9 RESIDUE PEPTIDE FROM SMAC/DIABLOCOMPLEXED TO REMARK 900 THE BIR3 DOMAIN OF XIAP REMARK 900 RELATED ID: 1I51 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CASPASE-7 COMPLEXED WITH XIAP DBREF 2VSL A 250 345 UNP P98170 BIRC4_HUMAN 250 345 DBREF 2VSL B 1 4 PDB 2VSL 2VSL 1 4 SEQRES 1 A 96 PHE PRO ASN SER THR ASN LEU PRO ARG ASN PRO SER MET SEQRES 2 A 96 ALA ASP TYR GLU ALA ARG ILE PHE THR PHE GLY THR TRP SEQRES 3 A 96 ILE TYR SER VAL ASN LYS GLU GLN LEU ALA ARG ALA GLY SEQRES 4 A 96 PHE TYR ALA LEU GLY GLU GLY ASP LYS VAL LYS CYS PHE SEQRES 5 A 96 HIS CYS GLY GLY GLY LEU THR ASP TRP LYS PRO SER GLU SEQRES 6 A 96 ASP PRO TRP GLU GLN HIS ALA LYS TRP TYR PRO GLY CYS SEQRES 7 A 96 LYS TYR LEU LEU GLU GLN LYS GLY GLN GLU TYR ILE ASN SEQRES 8 A 96 ASN ILE HIS LEU THR SEQRES 1 B 4 MAA LYS PRO PHE MODRES 2VSL MAA B 1 ALA N-METHYL-L-ALANINE HET MAA B 1 6 HET 15P A1346 5 HET ZN A1347 1 HETNAM MAA N-METHYL-L-ALANINE HETNAM 15P POLYETHYLENE GLYCOL (N=34) HETNAM ZN ZINC ION HETSYN 15P PEG 1500 FORMUL 2 MAA C4 H9 N O2 FORMUL 3 15P C69 H140 O35 FORMUL 4 ZN ZN 2+ FORMUL 5 HOH *60(H2 O) HELIX 1 1 ASN A 259 ALA A 263 5 5 HELIX 2 2 ASP A 264 THR A 271 1 8 HELIX 3 3 ASN A 280 ALA A 287 1 8 HELIX 4 4 ASP A 315 TYR A 324 1 10 HELIX 5 5 CYS A 327 HIS A 343 1 17 SHEET 1 AA 4 PHE A 289 ALA A 291 0 SHEET 2 AA 4 VAL A 298 CYS A 300 -1 O LYS A 299 N TYR A 290 SHEET 3 AA 4 GLY A 306 LEU A 307 -1 O LEU A 307 N VAL A 298 SHEET 4 AA 4 PRO B 3 PHE B 4 -1 O PHE B 4 N GLY A 306 LINK C MAA B 1 N LYS B 2 1555 1555 1.32 LINK SG CYS A 300 ZN ZN A1347 1555 1555 2.33 LINK SG CYS A 303 ZN ZN A1347 1555 1555 2.19 LINK NE2 HIS A 320 ZN ZN A1347 1555 1555 2.12 LINK SG CYS A 327 ZN ZN A1347 1555 1555 2.42 CISPEP 1 PHE A 250 PRO A 251 0 -0.07 SITE 1 AC1 5 PRO A 251 LYS A 322 TRP A 323 PRO A 325 SITE 2 AC1 5 HOH A2047 SITE 1 AC2 4 CYS A 300 CYS A 303 HIS A 320 CYS A 327 SITE 1 AC3 15 LYS A 297 VAL A 298 LYS A 299 GLY A 306 SITE 2 AC3 15 LEU A 307 THR A 308 ASP A 309 LYS A 311 SITE 3 AC3 15 GLU A 314 GLN A 319 TRP A 323 TYR A 324 SITE 4 AC3 15 HOH A2044 HOH B2001 HOH B2002 CRYST1 102.478 102.478 65.218 90.00 90.00 90.00 I 4 2 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 0.009758 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009758 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015333 0.00000