PDB Short entry for 3IUX HEADER LIGASE 31-AUG-09 3IUX TITLE CRYSTAL STRUCTURE OF HUMAN MDM2 IN COMPLEX WITH A POTENT MINIATURE TITLE 2 PROTEIN INHIBITOR (18-RESIDUES) COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE MDM2; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: UNP RESIDUES 25-109, P53 BINDING DOMAIN, SWIB DOMAIN; COMPND 5 SYNONYM: P53-BINDING PROTEIN MDM2, ONCOPROTEIN MDM2, DOUBLE MINUTE 2 COMPND 6 PROTEIN, HDM2; COMPND 7 EC: 6.3.2.-; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: MINIATURE PROTEIN INHIBITOR; COMPND 11 CHAIN: B, D; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: MDM2 SEQUENCE OCCURS NATURALLY IN HUMANS; SOURCE 4 MOL_ID: 2; SOURCE 5 SYNTHETIC: YES; SOURCE 6 OTHER_DETAILS: DESIGEND MINIATURE PROTEIN KEYWDS MDM2, P53 BINDING DOMAIN, PEPTIDE ACTIVATOR OF P53, HOST-VIRUS KEYWDS 2 INTERACTION, LIGASE, METAL-BINDING, NUCLEUS, PHOSPHOPROTEIN, PROTO- KEYWDS 3 ONCOGENE, UBL CONJUGATION PATHWAY, ZINC-FINGER EXPDTA X-RAY DIFFRACTION AUTHOR M.PAZGIER,W.LU REVDAT 4 06-SEP-23 3IUX 1 REMARK LINK REVDAT 3 13-JUL-11 3IUX 1 VERSN REVDAT 2 24-NOV-09 3IUX 1 JRNL REVDAT 1 27-OCT-09 3IUX 0 JRNL AUTH C.LI,M.PAZGIER,M.LIU,W.Y.LU,W.LU JRNL TITL APAMIN AS A TEMPLATE FOR STRUCTURE-BASED RATIONAL DESIGN OF JRNL TITL 2 POTENT PEPTIDE ACTIVATORS OF P53. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 48 8712 2009 JRNL REFN ISSN 1433-7851 JRNL PMID 19827079 JRNL DOI 10.1002/ANIE.200904550 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0070 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 27970 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) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1493 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2016 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.2470 REMARK 3 BIN FREE R VALUE SET COUNT : 91 REMARK 3 BIN FREE R VALUE : 0.2690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1678 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 211 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.13000 REMARK 3 B22 (A**2) : 0.31000 REMARK 3 B33 (A**2) : -0.44000 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): 0.097 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.091 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.515 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.963 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1783 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2408 ; 1.703 ; 2.006 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 206 ; 6.552 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 74 ;43.436 ;23.243 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 335 ;12.008 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;15.502 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 263 ; 0.123 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1314 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1050 ; 0.983 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1703 ; 1.643 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 733 ; 2.938 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 704 ; 4.818 ; 4.500 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : B D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 0 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 A (A): 98 ; 0.30 ; 5.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 98 ; 0.93 ; 10.00 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 : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 27 A 109 REMARK 3 RESIDUE RANGE : A 1 A 110 REMARK 3 RESIDUE RANGE : A 5 A 209 REMARK 3 ORIGIN FOR THE GROUP (A): 4.5390 14.0972 7.4726 REMARK 3 T TENSOR REMARK 3 T11: 0.0105 T22: 0.0219 REMARK 3 T33: 0.0111 T12: 0.0052 REMARK 3 T13: 0.0016 T23: -0.0043 REMARK 3 L TENSOR REMARK 3 L11: 1.0074 L22: 1.1265 REMARK 3 L33: 0.3691 L12: 0.6182 REMARK 3 L13: -0.0897 L23: -0.0273 REMARK 3 S TENSOR REMARK 3 S11: 0.0223 S12: -0.0494 S13: -0.0648 REMARK 3 S21: 0.0197 S22: -0.0358 S23: -0.0235 REMARK 3 S31: -0.0024 S32: 0.0061 S33: 0.0135 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 18 REMARK 3 RESIDUE RANGE : B 19 B 212 REMARK 3 ORIGIN FOR THE GROUP (A): 2.0758 29.0337 7.2953 REMARK 3 T TENSOR REMARK 3 T11: 0.0301 T22: 0.0255 REMARK 3 T33: 0.0397 T12: 0.0098 REMARK 3 T13: 0.0013 T23: -0.0146 REMARK 3 L TENSOR REMARK 3 L11: 2.7409 L22: 6.3425 REMARK 3 L33: 1.5307 L12: -1.7450 REMARK 3 L13: 0.4280 L23: -0.1912 REMARK 3 S TENSOR REMARK 3 S11: -0.0306 S12: -0.1070 S13: 0.2688 REMARK 3 S21: -0.0796 S22: 0.0029 S23: 0.0561 REMARK 3 S31: -0.0554 S32: -0.0827 S33: 0.0277 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 28 C 109 REMARK 3 RESIDUE RANGE : C 1 C 110 REMARK 3 RESIDUE RANGE : C 2 C 211 REMARK 3 ORIGIN FOR THE GROUP (A): 7.0862 21.8857 30.4987 REMARK 3 T TENSOR REMARK 3 T11: 0.0058 T22: 0.0280 REMARK 3 T33: 0.0153 T12: -0.0101 REMARK 3 T13: 0.0053 T23: -0.0180 REMARK 3 L TENSOR REMARK 3 L11: 1.0492 L22: 1.6297 REMARK 3 L33: 0.5926 L12: -0.2108 REMARK 3 L13: 0.3393 L23: 0.0665 REMARK 3 S TENSOR REMARK 3 S11: 0.0477 S12: -0.0437 S13: 0.0467 REMARK 3 S21: -0.0035 S22: -0.0633 S23: 0.0769 REMARK 3 S31: -0.0177 S32: 0.0390 S33: 0.0156 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 18 REMARK 3 RESIDUE RANGE : D 19 D 205 REMARK 3 ORIGIN FOR THE GROUP (A): 4.6642 6.7641 30.3980 REMARK 3 T TENSOR REMARK 3 T11: 0.0178 T22: 0.0069 REMARK 3 T33: 0.0191 T12: -0.0083 REMARK 3 T13: -0.0051 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 2.9318 L22: 6.5827 REMARK 3 L33: 2.4661 L12: 1.0578 REMARK 3 L13: -0.3188 L23: -0.6999 REMARK 3 S TENSOR REMARK 3 S11: 0.0315 S12: 0.0149 S13: -0.1248 REMARK 3 S21: 0.0413 S22: -0.0700 S23: 0.0561 REMARK 3 S31: 0.0696 S32: -0.0861 S33: 0.0384 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: NULL REMARK 4 REMARK 4 3IUX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000054895. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUL-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29487 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.10500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 4.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.49200 REMARK 200 R SYM FOR SHELL (I) : 0.49200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.200 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: PDB ENTRY 3EQS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2% PEG 400, 0.1 M HEPES, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 273K 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 22.07800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 37.79950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.78450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 37.79950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.07800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.78450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 1930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 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 GLU A 25 REMARK 465 THR A 26 REMARK 465 GLU C 25 REMARK 465 THR C 26 REMARK 465 LEU C 27 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLN B 17 C HIA B 18 N 0.172 REMARK 500 GLN D 17 C HIA D 18 N 0.211 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 ALA B 5 71.20 -158.02 REMARK 500 ALA B 5 71.01 -158.02 REMARK 500 GLU B 7 -71.96 72.43 REMARK 500 ALA D 5 70.68 -159.37 REMARK 500 ALA D 5 70.87 -159.37 REMARK 500 GLU D 7 -68.88 71.38 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 ACT A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 110 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C 110 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YCR RELATED DB: PDB REMARK 900 MDM2 BOUND TO THE TRANSACTIVATION DOMAIN OF P53 REMARK 900 RELATED ID: 3EQY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN MDM2 IN COMPLEX WITH A 12-MER PEPTIDE REMARK 900 RELATED ID: 1T4E RELATED DB: PDB REMARK 900 STRUCTURE OF HUMAN MDM2 IN COMPLEX WITH AN OPTIMIZED P53 PEPTIDE REMARK 900 RELATED ID: 3IVJ RELATED DB: PDB DBREF 3IUX A 25 109 UNP Q00987 MDM2_HUMAN 25 109 DBREF 3IUX C 25 109 UNP Q00987 MDM2_HUMAN 25 109 DBREF 3IUX B 1 18 PDB 3IUX 3IUX 1 18 DBREF 3IUX D 1 18 PDB 3IUX 3IUX 1 18 SEQRES 1 A 85 GLU THR LEU VAL ARG PRO LYS PRO LEU LEU LEU LYS LEU SEQRES 2 A 85 LEU LYS SER VAL GLY ALA GLN LYS ASP THR TYR THR MET SEQRES 3 A 85 LYS GLU VAL LEU PHE TYR LEU GLY GLN TYR ILE MET THR SEQRES 4 A 85 LYS ARG LEU TYR ASP GLU LYS GLN GLN HIS ILE VAL TYR SEQRES 5 A 85 CYS SER ASN ASP LEU LEU GLY ASP LEU PHE GLY VAL PRO SEQRES 6 A 85 SER PHE SER VAL LYS GLU HIS ARG LYS ILE TYR THR MET SEQRES 7 A 85 ILE TYR ARG ASN LEU VAL VAL SEQRES 1 B 18 CYS ASN CYS LYS ALA PRO GLU THR PHE LEU CYS TYR TRP SEQRES 2 B 18 ARG CYS LEU GLN HIA SEQRES 1 C 85 GLU THR LEU VAL ARG PRO LYS PRO LEU LEU LEU LYS LEU SEQRES 2 C 85 LEU LYS SER VAL GLY ALA GLN LYS ASP THR TYR THR MET SEQRES 3 C 85 LYS GLU VAL LEU PHE TYR LEU GLY GLN TYR ILE MET THR SEQRES 4 C 85 LYS ARG LEU TYR ASP GLU LYS GLN GLN HIS ILE VAL TYR SEQRES 5 C 85 CYS SER ASN ASP LEU LEU GLY ASP LEU PHE GLY VAL PRO SEQRES 6 C 85 SER PHE SER VAL LYS GLU HIS ARG LYS ILE TYR THR MET SEQRES 7 C 85 ILE TYR ARG ASN LEU VAL VAL SEQRES 1 D 18 CYS ASN CYS LYS ALA PRO GLU THR PHE LEU CYS TYR TRP SEQRES 2 D 18 ARG CYS LEU GLN HIA MODRES 3IUX HIA B 18 HIS L-HISTIDINE AMIDE MODRES 3IUX HIA D 18 HIS L-HISTIDINE AMIDE HET HIA B 18 11 HET HIA D 18 11 HET ACT A 1 4 HET ACT A 2 4 HET ACT A 3 4 HET CL A 110 1 HET CL C 1 1 HET CL C 110 1 HETNAM HIA L-HISTIDINE AMIDE HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION HETSYN HIA L-HISTIDINAMIDE FORMUL 2 HIA 2(C6 H10 N4 O) FORMUL 5 ACT 3(C2 H3 O2 1-) FORMUL 8 CL 3(CL 1-) FORMUL 11 HOH *211(H2 O) HELIX 1 1 LYS A 31 VAL A 41 1 11 HELIX 2 2 THR A 49 ARG A 65 1 17 HELIX 3 3 ASP A 80 GLY A 87 1 8 HELIX 4 4 GLU A 95 ASN A 106 1 12 HELIX 5 5 THR B 8 GLN B 17 1 10 HELIX 6 6 LYS C 31 VAL C 41 1 11 HELIX 7 7 THR C 49 LYS C 64 1 16 HELIX 8 8 ASP C 80 GLY C 87 1 8 HELIX 9 9 GLU C 95 ASN C 106 1 12 HELIX 10 10 THR D 8 GLN D 17 1 10 SHEET 1 A 2 ARG A 29 PRO A 30 0 SHEET 2 A 2 LEU A 107 VAL A 108 -1 O VAL A 108 N ARG A 29 SHEET 1 B 2 ILE A 74 TYR A 76 0 SHEET 2 B 2 SER A 90 SER A 92 -1 O PHE A 91 N VAL A 75 SHEET 1 C 2 ARG C 29 PRO C 30 0 SHEET 2 C 2 LEU C 107 VAL C 108 -1 O VAL C 108 N ARG C 29 SHEET 1 D 2 ILE C 74 TYR C 76 0 SHEET 2 D 2 SER C 90 SER C 92 -1 O PHE C 91 N VAL C 75 SSBOND 1 CYS B 1 CYS B 11 1555 1555 2.02 SSBOND 2 CYS B 3 CYS B 15 1555 1555 2.02 SSBOND 3 CYS D 1 CYS D 11 1555 1555 2.06 SSBOND 4 CYS D 3 CYS D 15 1555 1555 2.04 LINK C GLN B 17 N HIA B 18 1555 1555 1.51 LINK C GLN D 17 N HIA D 18 1555 1555 1.55 SITE 1 AC1 4 LYS A 45 ASP A 46 THR A 47 HOH A 143 SITE 1 AC2 5 ASN A 79 HIS A 96 HOH A 133 HOH A 157 SITE 2 AC2 5 HOH A 177 SITE 1 AC3 4 ALA A 43 GLN A 44 LYS A 45 ARG D 14 SITE 1 AC4 2 ASN C 79 HIS C 96 SITE 1 AC5 3 HOH A 18 PRO A 32 LEU A 33 SITE 1 AC6 2 ASP C 46 THR C 47 CRYST1 44.156 71.569 75.599 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.022647 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013973 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013228 0.00000