HEADER LIGASE 06-APR-16 5J7G TITLE STRUCTURE OF MDM2 WITH LOW MOLECULAR WEIGHT INHIBITOR WITH ALIPHATIC TITLE 2 LINKER. COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE MDM2; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: DOUBLE MINUTE 2 PROTEIN,HDM2,ONCOPROTEIN MDM2,P53-BINDING COMPND 5 PROTEIN MDM2; COMPND 6 EC: 6.3.2.-; COMPND 7 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: MDM2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS P53, MDM2, MDMX, PROTEIN-PROTEIN INTERACTION, CANCER, INHIBITOR, KEYWDS 2 LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR A.TWARDA-CLAPA,K.KUBICA,K.GUZIK,G.DUBIN,T.A.HOLAK REVDAT 4 10-JAN-24 5J7G 1 REMARK REVDAT 3 31-JAN-18 5J7G 1 REMARK REVDAT 2 07-JUN-17 5J7G 1 JRNL REVDAT 1 17-MAY-17 5J7G 0 JRNL AUTH A.TWARDA-CLAPA,S.KRZANIK,K.KUBICA,K.GUZIK,B.LABUZEK, JRNL AUTH 2 C.G.NEOCHORITIS,K.KHOURY,K.KOWALSKA,M.CZUB,G.DUBIN, JRNL AUTH 3 A.DOMLING,L.SKALNIAK,T.A.HOLAK JRNL TITL 1,4,5-TRISUBSTITUTED IMIDAZOLE-BASED P53-MDM2/MDMX JRNL TITL 2 ANTAGONISTS WITH ALIPHATIC LINKERS FOR CONJUGATION WITH JRNL TITL 3 BIOLOGICAL CARRIERS. JRNL REF J. MED. CHEM. V. 60 4234 2017 JRNL REFN ISSN 1520-4804 JRNL PMID 28482147 JRNL DOI 10.1021/ACS.JMEDCHEM.7B00104 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 38383 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) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2033 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2734 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.10 REMARK 3 BIN R VALUE (WORKING SET) : 0.3590 REMARK 3 BIN FREE R VALUE SET COUNT : 156 REMARK 3 BIN FREE R VALUE : 0.3670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3013 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 188 REMARK 3 SOLVENT ATOMS : 85 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 4.18000 REMARK 3 B33 (A**2) : -4.17000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.135 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.130 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.133 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.688 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.957 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3287 ; 0.018 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3141 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4462 ; 2.299 ; 2.049 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7183 ; 0.952 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 380 ; 5.775 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 119 ;41.693 ;23.361 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 545 ;18.044 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;19.831 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 495 ; 0.124 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3591 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 752 ; 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): 1526 ; 2.578 ; 3.172 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1525 ; 2.577 ; 3.171 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1901 ; 3.526 ; 4.733 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 17 A 110 REMARK 3 ORIGIN FOR THE GROUP (A): 41.3613 25.3321 10.6213 REMARK 3 T TENSOR REMARK 3 T11: 0.1418 T22: 0.0192 REMARK 3 T33: 0.0337 T12: 0.0190 REMARK 3 T13: 0.0251 T23: 0.0129 REMARK 3 L TENSOR REMARK 3 L11: 1.8406 L22: 1.6521 REMARK 3 L33: 6.4128 L12: 0.2293 REMARK 3 L13: 0.5295 L23: -0.1060 REMARK 3 S TENSOR REMARK 3 S11: -0.0829 S12: -0.1301 S13: -0.0207 REMARK 3 S21: 0.0075 S22: 0.0878 S23: 0.1639 REMARK 3 S31: 0.1014 S32: -0.1534 S33: -0.0049 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 17 B 114 REMARK 3 ORIGIN FOR THE GROUP (A): 42.7543 11.7598 -11.2154 REMARK 3 T TENSOR REMARK 3 T11: 0.0685 T22: 0.0163 REMARK 3 T33: 0.0395 T12: 0.0100 REMARK 3 T13: 0.0100 T23: 0.0179 REMARK 3 L TENSOR REMARK 3 L11: 2.1781 L22: 2.0863 REMARK 3 L33: 6.3764 L12: 0.1210 REMARK 3 L13: 0.2452 L23: 0.6855 REMARK 3 S TENSOR REMARK 3 S11: -0.0078 S12: 0.0663 S13: -0.0509 REMARK 3 S21: -0.0836 S22: 0.0746 S23: 0.1501 REMARK 3 S31: -0.3929 S32: -0.1802 S33: -0.0669 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 17 C 111 REMARK 3 ORIGIN FOR THE GROUP (A): 46.8830 2.2706 -32.8135 REMARK 3 T TENSOR REMARK 3 T11: 0.0675 T22: 0.0200 REMARK 3 T33: 0.0407 T12: 0.0182 REMARK 3 T13: -0.0267 T23: 0.0084 REMARK 3 L TENSOR REMARK 3 L11: 2.5211 L22: 1.6359 REMARK 3 L33: 4.5088 L12: -0.1698 REMARK 3 L13: 0.5397 L23: 0.1954 REMARK 3 S TENSOR REMARK 3 S11: 0.1835 S12: 0.0271 S13: -0.2536 REMARK 3 S21: 0.0223 S22: -0.0487 S23: -0.0500 REMARK 3 S31: 0.2291 S32: 0.0882 S33: -0.1348 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 17 D 111 REMARK 3 ORIGIN FOR THE GROUP (A): 50.3613 41.1143 -31.4345 REMARK 3 T TENSOR REMARK 3 T11: 0.0659 T22: 0.1308 REMARK 3 T33: 0.0199 T12: -0.0150 REMARK 3 T13: -0.0173 T23: 0.0120 REMARK 3 L TENSOR REMARK 3 L11: 1.4960 L22: 2.5236 REMARK 3 L33: 5.6051 L12: -0.2243 REMARK 3 L13: 0.4108 L23: 0.0028 REMARK 3 S TENSOR REMARK 3 S11: 0.0460 S12: -0.0279 S13: -0.1506 REMARK 3 S21: 0.1059 S22: -0.0222 S23: -0.0561 REMARK 3 S31: 0.2871 S32: 0.4376 S33: -0.0239 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 5J7G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-APR-16. REMARK 100 THE DEPOSITION ID IS D_1000219997. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-SEP-15 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 : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40453 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 85.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06100 REMARK 200 FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.50900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.5 REMARK 200 STARTING MODEL: 3TJ2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M NA HEPES PH 7.5 WITH 10% REMARK 280 ISOPROPANOL AND 20% PEG 4000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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+1/2,-Z+1/2 REMARK 290 4555 -X,-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 37.15050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 85.70000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.15050 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 85.70000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: 900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL 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 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 74.30100 REMARK 350 BIOMT3 2 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: 1140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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: 3 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: 900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 110.25000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 37.15050 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -85.70000 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 ASN A 111 REMARK 465 GLN A 112 REMARK 465 GLN A 113 REMARK 465 GLU A 114 REMARK 465 SER A 115 REMARK 465 SER A 116 REMARK 465 ASP A 117 REMARK 465 SER A 118 REMARK 465 GLY A 119 REMARK 465 THR A 120 REMARK 465 SER A 121 REMARK 465 VAL A 122 REMARK 465 SER A 123 REMARK 465 GLU A 124 REMARK 465 ASN A 125 REMARK 465 SER B 115 REMARK 465 SER B 116 REMARK 465 ASP B 117 REMARK 465 SER B 118 REMARK 465 GLY B 119 REMARK 465 THR B 120 REMARK 465 SER B 121 REMARK 465 VAL B 122 REMARK 465 SER B 123 REMARK 465 GLU B 124 REMARK 465 ASN B 125 REMARK 465 GLN C 112 REMARK 465 GLN C 113 REMARK 465 GLU C 114 REMARK 465 SER C 115 REMARK 465 SER C 116 REMARK 465 ASP C 117 REMARK 465 SER C 118 REMARK 465 GLY C 119 REMARK 465 THR C 120 REMARK 465 SER C 121 REMARK 465 VAL C 122 REMARK 465 SER C 123 REMARK 465 GLU C 124 REMARK 465 ASN C 125 REMARK 465 GLN D 112 REMARK 465 GLN D 113 REMARK 465 GLU D 114 REMARK 465 SER D 115 REMARK 465 SER D 116 REMARK 465 ASP D 117 REMARK 465 SER D 118 REMARK 465 GLY D 119 REMARK 465 THR D 120 REMARK 465 SER D 121 REMARK 465 VAL D 122 REMARK 465 SER D 123 REMARK 465 GLU D 124 REMARK 465 ASN D 125 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 MET A 17 CG SD CE REMARK 470 GLU A 25 CD OE1 OE2 REMARK 470 LYS A 36 CD CE NZ REMARK 470 GLN A 44 CG CD OE1 NE2 REMARK 470 LYS A 45 CD CE NZ REMARK 470 ASP A 46 OD1 OD2 REMARK 470 LYS A 51 CD CE NZ REMARK 470 GLU A 69 CD OE1 OE2 REMARK 470 LYS A 70 CG CD CE NZ REMARK 470 LYS A 98 CE NZ REMARK 470 ARG A 105 CD NE CZ NH1 NH2 REMARK 470 MET B 17 CG SD CE REMARK 470 GLU B 25 CD OE1 OE2 REMARK 470 LYS B 36 CD CE NZ REMARK 470 LYS B 39 NZ REMARK 470 GLN B 44 CG CD OE1 NE2 REMARK 470 LYS B 45 CE NZ REMARK 470 ASP B 46 CG OD1 OD2 REMARK 470 LYS B 51 CE NZ REMARK 470 GLU B 69 CD OE1 OE2 REMARK 470 LYS B 70 CG CD CE NZ REMARK 470 GLN B 113 CG CD OE1 NE2 REMARK 470 GLU B 114 CG CD OE1 OE2 REMARK 470 MET C 17 CG SD CE REMARK 470 LYS C 36 CE NZ REMARK 470 LYS C 39 CG CD CE NZ REMARK 470 GLN C 44 CG CD OE1 NE2 REMARK 470 ASP C 46 CG OD1 OD2 REMARK 470 LYS C 51 NZ REMARK 470 GLU C 69 CG CD OE1 OE2 REMARK 470 LYS C 70 CG CD CE NZ REMARK 470 ASN C 111 CG OD1 ND2 REMARK 470 MET D 17 CG SD CE REMARK 470 GLU D 25 CD OE1 OE2 REMARK 470 LYS D 31 CD CE NZ REMARK 470 LYS D 39 CE NZ REMARK 470 GLN D 44 CG CD OE1 NE2 REMARK 470 ASP D 46 OD1 OD2 REMARK 470 LYS D 51 CG CD CE NZ REMARK 470 GLU D 69 CD OE1 OE2 REMARK 470 LYS D 70 CG CD CE NZ REMARK 470 ASN D 111 CG OD1 ND2 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 LEU A 107 CB - CG - CD2 ANGL. DEV. = 10.9 DEGREES REMARK 500 LEU C 54 CA - CB - CG ANGL. DEV. = -16.7 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 LYS B 45 174.99 -56.07 REMARK 500 GLU C 95 78.94 -104.54 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 6GG A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6GG B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6GG C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6GG D 201 DBREF 5J7G A 18 125 UNP Q00987 MDM2_HUMAN 18 125 DBREF 5J7G B 18 125 UNP Q00987 MDM2_HUMAN 18 125 DBREF 5J7G C 18 125 UNP Q00987 MDM2_HUMAN 18 125 DBREF 5J7G D 18 125 UNP Q00987 MDM2_HUMAN 18 125 SEQADV 5J7G MET A 17 UNP Q00987 INITIATING METHIONINE SEQADV 5J7G MET B 17 UNP Q00987 INITIATING METHIONINE SEQADV 5J7G MET C 17 UNP Q00987 INITIATING METHIONINE SEQADV 5J7G MET D 17 UNP Q00987 INITIATING METHIONINE SEQRES 1 A 109 MET GLN ILE PRO ALA SER GLU GLN GLU THR LEU VAL ARG SEQRES 2 A 109 PRO LYS PRO LEU LEU LEU LYS LEU LEU LYS SER VAL GLY SEQRES 3 A 109 ALA GLN LYS ASP THR TYR THR MET LYS GLU VAL LEU PHE SEQRES 4 A 109 TYR LEU GLY GLN TYR ILE MET THR LYS ARG LEU TYR ASP SEQRES 5 A 109 GLU LYS GLN GLN HIS ILE VAL TYR CYS SER ASN ASP LEU SEQRES 6 A 109 LEU GLY ASP LEU PHE GLY VAL PRO SER PHE SER VAL LYS SEQRES 7 A 109 GLU HIS ARG LYS ILE TYR THR MET ILE TYR ARG ASN LEU SEQRES 8 A 109 VAL VAL VAL ASN GLN GLN GLU SER SER ASP SER GLY THR SEQRES 9 A 109 SER VAL SER GLU ASN SEQRES 1 B 109 MET GLN ILE PRO ALA SER GLU GLN GLU THR LEU VAL ARG SEQRES 2 B 109 PRO LYS PRO LEU LEU LEU LYS LEU LEU LYS SER VAL GLY SEQRES 3 B 109 ALA GLN LYS ASP THR TYR THR MET LYS GLU VAL LEU PHE SEQRES 4 B 109 TYR LEU GLY GLN TYR ILE MET THR LYS ARG LEU TYR ASP SEQRES 5 B 109 GLU LYS GLN GLN HIS ILE VAL TYR CYS SER ASN ASP LEU SEQRES 6 B 109 LEU GLY ASP LEU PHE GLY VAL PRO SER PHE SER VAL LYS SEQRES 7 B 109 GLU HIS ARG LYS ILE TYR THR MET ILE TYR ARG ASN LEU SEQRES 8 B 109 VAL VAL VAL ASN GLN GLN GLU SER SER ASP SER GLY THR SEQRES 9 B 109 SER VAL SER GLU ASN SEQRES 1 C 109 MET GLN ILE PRO ALA SER GLU GLN GLU THR LEU VAL ARG SEQRES 2 C 109 PRO LYS PRO LEU LEU LEU LYS LEU LEU LYS SER VAL GLY SEQRES 3 C 109 ALA GLN LYS ASP THR TYR THR MET LYS GLU VAL LEU PHE SEQRES 4 C 109 TYR LEU GLY GLN TYR ILE MET THR LYS ARG LEU TYR ASP SEQRES 5 C 109 GLU LYS GLN GLN HIS ILE VAL TYR CYS SER ASN ASP LEU SEQRES 6 C 109 LEU GLY ASP LEU PHE GLY VAL PRO SER PHE SER VAL LYS SEQRES 7 C 109 GLU HIS ARG LYS ILE TYR THR MET ILE TYR ARG ASN LEU SEQRES 8 C 109 VAL VAL VAL ASN GLN GLN GLU SER SER ASP SER GLY THR SEQRES 9 C 109 SER VAL SER GLU ASN SEQRES 1 D 109 MET GLN ILE PRO ALA SER GLU GLN GLU THR LEU VAL ARG SEQRES 2 D 109 PRO LYS PRO LEU LEU LEU LYS LEU LEU LYS SER VAL GLY SEQRES 3 D 109 ALA GLN LYS ASP THR TYR THR MET LYS GLU VAL LEU PHE SEQRES 4 D 109 TYR LEU GLY GLN TYR ILE MET THR LYS ARG LEU TYR ASP SEQRES 5 D 109 GLU LYS GLN GLN HIS ILE VAL TYR CYS SER ASN ASP LEU SEQRES 6 D 109 LEU GLY ASP LEU PHE GLY VAL PRO SER PHE SER VAL LYS SEQRES 7 D 109 GLU HIS ARG LYS ILE TYR THR MET ILE TYR ARG ASN LEU SEQRES 8 D 109 VAL VAL VAL ASN GLN GLN GLU SER SER ASP SER GLY THR SEQRES 9 D 109 SER VAL SER GLU ASN HET 6GG A 201 47 HET 6GG B 201 47 HET 6GG C 201 47 HET 6GG D 201 47 HETNAM 6GG 4-({6-[(6-CHLORO-3-{1-[(4-CHLOROPHENYL)METHYL]-4-(4- HETNAM 2 6GG FLUOROPHENYL)-1H-IMIDAZOL-5-YL}-1H-INDOLE-2-CARBONYL) HETNAM 3 6GG OXY]HEXYL}AMINO)-4-OXOBUTANOIC ACID FORMUL 5 6GG 4(C35 H33 CL2 F N4 O5) FORMUL 9 HOH *85(H2 O) HELIX 1 AA1 PRO A 20 GLU A 25 1 6 HELIX 2 AA2 LYS A 31 VAL A 41 1 11 HELIX 3 AA3 MET A 50 LYS A 64 1 15 HELIX 4 AA4 ASP A 80 GLY A 87 1 8 HELIX 5 AA5 GLU A 95 ARG A 105 1 11 HELIX 6 AA6 PRO B 20 GLU B 25 1 6 HELIX 7 AA7 LYS B 31 SER B 40 1 10 HELIX 8 AA8 MET B 50 LYS B 64 1 15 HELIX 9 AA9 ASP B 80 GLY B 87 1 8 HELIX 10 AB1 GLU B 95 ARG B 105 1 11 HELIX 11 AB2 PRO C 20 GLU C 25 1 6 HELIX 12 AB3 LYS C 31 VAL C 41 1 11 HELIX 13 AB4 MET C 50 LYS C 64 1 15 HELIX 14 AB5 ASP C 80 GLY C 87 1 8 HELIX 15 AB6 GLU C 95 ARG C 105 1 11 HELIX 16 AB7 PRO D 20 THR D 26 1 7 HELIX 17 AB8 LYS D 31 SER D 40 1 10 HELIX 18 AB9 MET D 50 LYS D 64 1 15 HELIX 19 AC1 ASP D 80 GLY D 87 1 8 HELIX 20 AC2 GLU D 95 ARG D 105 1 11 SHEET 1 AA1 3 TYR A 48 THR A 49 0 SHEET 2 AA1 3 LEU A 27 PRO A 30 -1 N VAL A 28 O TYR A 48 SHEET 3 AA1 3 LEU A 107 VAL A 109 -1 O VAL A 108 N ARG A 29 SHEET 1 AA2 2 ILE A 74 TYR A 76 0 SHEET 2 AA2 2 SER A 90 SER A 92 -1 O PHE A 91 N VAL A 75 SHEET 1 AA3 3 TYR B 48 THR B 49 0 SHEET 2 AA3 3 LEU B 27 PRO B 30 -1 N VAL B 28 O TYR B 48 SHEET 3 AA3 3 LEU B 107 VAL B 108 -1 O VAL B 108 N ARG B 29 SHEET 1 AA4 2 ILE B 74 TYR B 76 0 SHEET 2 AA4 2 SER B 90 SER B 92 -1 O PHE B 91 N VAL B 75 SHEET 1 AA5 3 TYR C 48 THR C 49 0 SHEET 2 AA5 3 LEU C 27 PRO C 30 -1 N VAL C 28 O TYR C 48 SHEET 3 AA5 3 LEU C 107 VAL C 109 -1 O VAL C 108 N ARG C 29 SHEET 1 AA6 2 ILE C 74 TYR C 76 0 SHEET 2 AA6 2 SER C 90 SER C 92 -1 O PHE C 91 N VAL C 75 SHEET 1 AA7 3 TYR D 48 THR D 49 0 SHEET 2 AA7 3 LEU D 27 PRO D 30 -1 N VAL D 28 O TYR D 48 SHEET 3 AA7 3 LEU D 107 VAL D 109 -1 O VAL D 108 N ARG D 29 SHEET 1 AA8 2 ILE D 74 TYR D 76 0 SHEET 2 AA8 2 SER D 90 SER D 92 -1 O PHE D 91 N VAL D 75 SITE 1 AC1 13 LEU A 54 GLY A 58 ILE A 61 TYR A 67 SITE 2 AC1 13 GLN A 72 VAL A 93 HIS A 96 ILE A 99 SITE 3 AC1 13 MET B 62 GLN B 72 VAL B 93 LYS B 94 SITE 4 AC1 13 6GG B 201 SITE 1 AC2 12 TYR A 67 GLN A 72 6GG A 201 LEU B 54 SITE 2 AC2 12 PHE B 55 GLY B 58 ILE B 61 TYR B 67 SITE 3 AC2 12 GLN B 72 VAL B 93 HIS B 96 HOH B 304 SITE 1 AC3 8 LEU C 54 PHE C 55 GLY C 58 ILE C 61 SITE 2 AC3 8 MET C 62 TYR C 67 VAL C 93 HIS C 96 SITE 1 AC4 12 LEU D 54 PHE D 55 GLY D 58 ILE D 61 SITE 2 AC4 12 MET D 62 TYR D 67 VAL D 93 HIS D 96 SITE 3 AC4 12 ILE D 99 TYR D 100 HOH D 301 HOH D 302 CRYST1 36.750 74.301 171.400 90.00 90.00 90.00 P 2 21 21 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 0.027211 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013459 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005834 0.00000