HEADER LIGASE/LIGASE INHIBITOR 26-MAR-13 4JVR TITLE CO-CRYSTAL STRUCTURE OF MDM2 WITH INHIBITOR (2'S,3R,4'S,5'R)-N-(2- TITLE 2 AMINOETHYL)-6-CHLORO-4'-(3-CHLORO-2-FLUOROPHENYL)-2'-(2,2- TITLE 3 DIMETHYLPROPYL)-2-OXO-1,2-DIHYDROSPIRO[INDOLE-3,3'-PYRROLIDINE]-5'- TITLE 4 CARBOXAMIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE MDM2; COMPND 3 CHAIN: A, C, E; COMPND 4 FRAGMENT: UNP RESIDUES 18-111; COMPND 5 SYNONYM: DOUBLE MINUTE 2 PROTEIN, HDM2, ONCOPROTEIN MDM2, P53-BINDING COMPND 6 PROTEIN MDM2; COMPND 7 EC: 6.3.2.-; COMPND 8 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, PROTEIN-PROTEIN INTERACTION, LIGASE-LIGASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.HUANG,F.GONZALEZ-LOPEZ DE TURISO,D.SUN,R.YOSUP,M.D.BARTBERGER, AUTHOR 2 H.P.BECK,J.CANNON,P.SHAFFER,J.D.OLINER,S.H.OLSON,J.C.MEDINA REVDAT 3 28-FEB-24 4JVR 1 REMARK SEQADV REVDAT 2 05-JUN-13 4JVR 1 JRNL REVDAT 1 01-MAY-13 4JVR 0 JRNL AUTH F.GONZALEZ-LOPEZ DE TURISO,D.SUN,Y.REW,M.D.BARTBERGER, JRNL AUTH 2 H.P.BECK,J.CANON,A.CHEN,D.CHOW,T.L.CORRELL,X.HUANG, JRNL AUTH 3 L.D.JULIAN,F.KAYSER,M.C.LO,A.M.LONG,D.MCMINN,J.D.OLINER, JRNL AUTH 4 T.OSGOOD,J.P.POWERS,A.Y.SAIKI,S.SCHNEIDER,P.SHAFFER, JRNL AUTH 5 S.H.XIAO,P.YAKOWEC,X.YAN,Q.YE,D.YU,X.ZHAO,J.ZHOU,J.C.MEDINA, JRNL AUTH 6 S.H.OLSON JRNL TITL RATIONAL DESIGN AND BINDING MODE DUALITY OF MDM2-P53 JRNL TITL 2 INHIBITORS. JRNL REF J.MED.CHEM. V. 56 4053 2013 JRNL REFN ISSN 0022-2623 JRNL PMID 23597064 JRNL DOI 10.1021/JM400293Z REMARK 2 REMARK 2 RESOLUTION. 1.70 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 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) (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 32343 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) : 0.256 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1609 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 : 2134 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 102 REMARK 3 SOLVENT ATOMS : 222 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.28900 REMARK 3 B22 (A**2) : 2.19800 REMARK 3 B33 (A**2) : -4.48700 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) : 1.169 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.956 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.802 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.733 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 : MDM2.PARAM REMARK 3 PARAMETER FILE 2 : 2098457.XPRM REMARK 3 PARAMETER FILE 3 : MSI_CNX_TOPPAR:WATER_REP.PARAM 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 4JVR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-APR-13. REMARK 100 THE DEPOSITION ID IS D_1000078565. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : DIAMOND(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36784 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.03400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 66.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.56000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM CITRATE, PH 5.0, 1.5-2.0 M REMARK 280 AMMONIUM SULFATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.28700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.28700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 28.33900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.18800 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 28.33900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.18800 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 52.28700 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 28.33900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.18800 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 52.28700 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 28.33900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.18800 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: 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 350 REMARK 350 BIOMOLECULE: 2 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: 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: E 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 69 REMARK 465 LYS A 70 REMARK 465 GLN A 71 REMARK 465 GLN A 72 REMARK 465 ASN A 111 REMARK 465 GLY A 112 REMARK 465 SER A 113 REMARK 465 GLU C 69 REMARK 465 LYS C 70 REMARK 465 GLN C 71 REMARK 465 GLN C 72 REMARK 465 ASN C 111 REMARK 465 GLY C 112 REMARK 465 SER C 113 REMARK 465 GLN E 18 REMARK 465 ALA E 43 REMARK 465 GLU E 69 REMARK 465 LYS E 70 REMARK 465 GLN E 71 REMARK 465 ASN E 111 REMARK 465 GLY E 112 REMARK 465 SER E 113 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 GLN A 18 CG CD OE1 NE2 REMARK 470 GLN A 44 CG CD OE1 NE2 REMARK 470 ARG A 65 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 73 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 97 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 105 CG CD NE CZ NH1 NH2 REMARK 470 GLN C 44 CG CD OE1 NE2 REMARK 470 GLN E 44 CG CD OE1 NE2 REMARK 470 GLN E 72 CG CD OE1 NE2 REMARK 470 HIS E 73 CG ND1 CD2 CE1 NE2 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 HOH E 312 O HOH E 355 1.61 REMARK 500 O HOH E 357 O HOH E 370 1.65 REMARK 500 O HOH A 341 O HOH E 355 1.77 REMARK 500 O HOH C 322 O HOH E 370 1.78 REMARK 500 O HOH A 367 O HOH E 355 1.81 REMARK 500 O HOH A 301 O HOH E 355 1.82 REMARK 500 O HOH E 306 O HOH E 370 1.82 REMARK 500 OE1 GLN A 59 O HOH A 363 1.91 REMARK 500 O HOH C 303 O HOH C 334 1.96 REMARK 500 O HOH A 320 O HOH A 322 2.00 REMARK 500 O HOH E 302 O HOH E 303 2.00 REMARK 500 O HOH E 310 O HOH E 347 2.01 REMARK 500 O HOH C 334 O HOH C 340 2.01 REMARK 500 NH1 ARG E 97 O HOH E 346 2.04 REMARK 500 C GLN C 18 NH2 ARG C 97 2.04 REMARK 500 O HOH C 327 O HOH C 332 2.04 REMARK 500 O HOH A 310 O HOH A 332 2.04 REMARK 500 O HOH A 329 O HOH E 353 2.04 REMARK 500 O HOH E 345 O HOH E 378 2.05 REMARK 500 O HOH A 360 O HOH C 354 2.06 REMARK 500 O HOH A 316 O HOH A 347 2.07 REMARK 500 O HOH E 360 O HOH E 381 2.07 REMARK 500 O HOH A 306 O HOH A 332 2.07 REMARK 500 O HOH E 316 O HOH E 377 2.08 REMARK 500 O HOH E 313 O HOH E 347 2.08 REMARK 500 O HOH A 321 O HOH A 342 2.10 REMARK 500 O HOH A 329 O HOH A 342 2.10 REMARK 500 O HOH E 308 O HOH E 326 2.10 REMARK 500 O HOH E 312 O HOH E 344 2.11 REMARK 500 O HOH C 314 O HOH C 328 2.11 REMARK 500 O HOH A 363 O HOH E 364 2.12 REMARK 500 O HOH C 323 O HOH C 347 2.14 REMARK 500 O HOH E 341 O HOH E 377 2.14 REMARK 500 O HOH A 322 O HOH C 364 2.14 REMARK 500 O HOH E 313 O HOH E 338 2.17 REMARK 500 NZ LYS A 45 OE2 GLU A 52 2.17 REMARK 500 O HOH A 321 O HOH A 329 2.18 REMARK 500 O HOH A 369 O HOH E 374 2.18 REMARK 500 O HOH A 313 O HOH A 350 2.18 REMARK 500 O HOH A 351 O HOH A 354 2.19 REMARK 500 O HOH C 311 O HOH C 314 2.19 REMARK 500 O HOH A 315 O HOH A 324 2.19 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 O HOH A 309 O HOH E 370 3454 1.84 REMARK 500 OE2 GLU C 25 OE2 GLU C 25 4554 1.93 REMARK 500 OE2 GLU A 25 OE2 GLU E 25 3454 2.00 REMARK 500 O HOH A 341 O HOH A 367 3454 2.00 REMARK 500 O HOH C 320 O HOH E 315 4554 2.00 REMARK 500 NZ LYS E 51 O HOH C 303 4554 2.08 REMARK 500 O HOH A 367 O HOH A 367 3454 2.13 REMARK 500 O HOH A 366 O HOH E 350 7454 2.15 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 LEU A 33 CB - CG - CD1 ANGL. DEV. = -12.0 DEGREES REMARK 500 LEU A 81 CB - CG - CD2 ANGL. DEV. = -13.8 DEGREES REMARK 500 LEU C 85 CB - CG - CD2 ANGL. DEV. = -13.0 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 ILE A 19 140.76 54.37 REMARK 500 GLN A 44 17.66 -145.29 REMARK 500 ALA C 43 154.71 -42.47 REMARK 500 GLN C 44 -7.99 -141.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 1MT A 201 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1MT A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1MT C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1MT E 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JV7 RELATED DB: PDB REMARK 900 RELATED ID: 4JV9 RELATED DB: PDB REMARK 900 RELATED ID: 4JVE RELATED DB: PDB REMARK 900 RELATED ID: 4JWR RELATED DB: PDB DBREF 4JVR A 18 111 UNP Q00987 MDM2_HUMAN 18 111 DBREF 4JVR C 18 111 UNP Q00987 MDM2_HUMAN 18 111 DBREF 4JVR E 18 111 UNP Q00987 MDM2_HUMAN 18 111 SEQADV 4JVR GLY A 112 UNP Q00987 EXPRESSION TAG SEQADV 4JVR SER A 113 UNP Q00987 EXPRESSION TAG SEQADV 4JVR GLY C 112 UNP Q00987 EXPRESSION TAG SEQADV 4JVR SER C 113 UNP Q00987 EXPRESSION TAG SEQADV 4JVR GLY E 112 UNP Q00987 EXPRESSION TAG SEQADV 4JVR SER E 113 UNP Q00987 EXPRESSION TAG SEQRES 1 A 96 GLN ILE PRO ALA SER GLU GLN GLU THR LEU VAL ARG PRO SEQRES 2 A 96 LYS PRO LEU LEU LEU LYS LEU LEU LYS SER VAL GLY ALA SEQRES 3 A 96 GLN LYS ASP THR TYR THR MET LYS GLU VAL LEU PHE TYR SEQRES 4 A 96 LEU GLY GLN TYR ILE MET THR LYS ARG LEU TYR ASP GLU SEQRES 5 A 96 LYS GLN GLN HIS ILE VAL TYR CYS SER ASN ASP LEU LEU SEQRES 6 A 96 GLY ASP LEU PHE GLY VAL PRO SER PHE SER VAL LYS GLU SEQRES 7 A 96 HIS ARG LYS ILE TYR THR MET ILE TYR ARG ASN LEU VAL SEQRES 8 A 96 VAL VAL ASN GLY SER SEQRES 1 C 96 GLN ILE PRO ALA SER GLU GLN GLU THR LEU VAL ARG PRO SEQRES 2 C 96 LYS PRO LEU LEU LEU LYS LEU LEU LYS SER VAL GLY ALA SEQRES 3 C 96 GLN LYS ASP THR TYR THR MET LYS GLU VAL LEU PHE TYR SEQRES 4 C 96 LEU GLY GLN TYR ILE MET THR LYS ARG LEU TYR ASP GLU SEQRES 5 C 96 LYS GLN GLN HIS ILE VAL TYR CYS SER ASN ASP LEU LEU SEQRES 6 C 96 GLY ASP LEU PHE GLY VAL PRO SER PHE SER VAL LYS GLU SEQRES 7 C 96 HIS ARG LYS ILE TYR THR MET ILE TYR ARG ASN LEU VAL SEQRES 8 C 96 VAL VAL ASN GLY SER SEQRES 1 E 96 GLN ILE PRO ALA SER GLU GLN GLU THR LEU VAL ARG PRO SEQRES 2 E 96 LYS PRO LEU LEU LEU LYS LEU LEU LYS SER VAL GLY ALA SEQRES 3 E 96 GLN LYS ASP THR TYR THR MET LYS GLU VAL LEU PHE TYR SEQRES 4 E 96 LEU GLY GLN TYR ILE MET THR LYS ARG LEU TYR ASP GLU SEQRES 5 E 96 LYS GLN GLN HIS ILE VAL TYR CYS SER ASN ASP LEU LEU SEQRES 6 E 96 GLY ASP LEU PHE GLY VAL PRO SER PHE SER VAL LYS GLU SEQRES 7 E 96 HIS ARG LYS ILE TYR THR MET ILE TYR ARG ASN LEU VAL SEQRES 8 E 96 VAL VAL ASN GLY SER HET 1MT A 201 34 HET 1MT C 201 34 HET 1MT E 201 34 HETNAM 1MT (2'S,3R,4'S,5'R)-N-(2-AMINOETHYL)-6-CHLORO-4'-(3- HETNAM 2 1MT CHLORO-2-FLUOROPHENYL)-2'-(2,2-DIMETHYLPROPYL)-2-OXO- HETNAM 3 1MT 1,2-DIHYDROSPIRO[INDOLE-3,3'-PYRROLIDINE]-5'- HETNAM 4 1MT CARBOXAMIDE FORMUL 4 1MT 3(C25 H29 CL2 F N4 O2) FORMUL 7 HOH *222(H2 O) HELIX 1 1 PRO A 20 GLU A 25 5 6 HELIX 2 2 LYS A 31 LYS A 39 1 9 HELIX 3 3 MET A 50 THR A 63 1 14 HELIX 4 4 ASP A 80 GLY A 87 1 8 HELIX 5 5 GLU A 95 ARG A 105 1 11 HELIX 6 6 PRO C 20 GLU C 25 5 6 HELIX 7 7 LYS C 31 LYS C 39 1 9 HELIX 8 8 SER C 40 GLY C 42 5 3 HELIX 9 9 MET C 50 LYS C 64 1 15 HELIX 10 10 ASP C 80 GLY C 87 1 8 HELIX 11 11 GLU C 95 ARG C 105 1 11 HELIX 12 12 PRO E 20 GLU E 25 5 6 HELIX 13 13 LYS E 31 GLY E 42 1 12 HELIX 14 14 MET E 50 LYS E 64 1 15 HELIX 15 15 ASP E 80 GLY E 87 1 8 HELIX 16 16 GLU E 95 ARG E 105 1 11 SHEET 1 A 3 TYR A 48 THR A 49 0 SHEET 2 A 3 LEU A 27 PRO A 30 -1 N VAL A 28 O TYR A 48 SHEET 3 A 3 LEU A 107 VAL A 109 -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 3 TYR C 48 THR C 49 0 SHEET 2 C 3 LEU C 27 PRO C 30 -1 N VAL C 28 O TYR C 48 SHEET 3 C 3 LEU C 107 VAL C 109 -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 SHEET 1 E 3 TYR E 48 THR E 49 0 SHEET 2 E 3 LEU E 27 PRO E 30 -1 N VAL E 28 O TYR E 48 SHEET 3 E 3 LEU E 107 VAL E 109 -1 O VAL E 108 N ARG E 29 SHEET 1 F 2 ILE E 74 TYR E 76 0 SHEET 2 F 2 SER E 90 SER E 92 -1 O PHE E 91 N VAL E 75 SITE 1 AC1 10 LEU A 54 LEU A 57 GLY A 58 MET A 62 SITE 2 AC1 10 TYR A 67 HIS A 96 ILE A 99 TYR A 100 SITE 3 AC1 10 HOH A 321 HOH A 342 SITE 1 AC2 9 LEU C 54 LEU C 57 ILE C 61 MET C 62 SITE 2 AC2 9 TYR C 67 VAL C 93 HIS C 96 ILE C 99 SITE 3 AC2 9 TYR C 100 SITE 1 AC3 11 LEU E 54 GLY E 58 ILE E 61 MET E 62 SITE 2 AC3 11 PHE E 86 HIS E 96 ILE E 99 TYR E 100 SITE 3 AC3 11 HOH E 302 HOH E 379 HOH E 380 CRYST1 56.678 98.376 104.574 90.00 90.00 90.00 C 2 2 21 24 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 0.017644 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010165 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009563 0.00000