HEADER PROTEIN BINDING 10-MAY-23 8P0D TITLE HUMAN 14-3-3 SIGMA IN COMPLEX WITH HUMAN MDM2 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 14-3-3 PROTEIN SIGMA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: EPITHELIAL CELL MARKER PROTEIN 1,STRATIFIN; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: TEV PROTEASE CLEAVABLE N-TERMINAL HIS-TAG. CTERM COMPND 7 DELTA-17 CONSTRUCT; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE MDM2; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: DOUBLE MINUTE 2 PROTEIN,HDM2,ONCOPROTEIN MDM2,RING-TYPE E3 COMPND 12 UBIQUITIN TRANSFERASE MDM2,P53-BINDING PROTEIN MDM2; COMPND 13 EC: 2.3.2.27; COMPND 14 ENGINEERED: YES; COMPND 15 OTHER_DETAILS: I MODIFIED THIS IN ORDER TO BE ABLE TO SUBMIT, BUT COMPND 16 PLEASE CORRECT THE SEQUENCE OF THE PEPTIDE: RRRAI(SEP) COMPND 17 ETEENSDELSGERQRKRHK(SEP)DSISL SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SFN, HME1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PPROEX HTB; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606 KEYWDS SIGNALING PROTEIN-PEPTIDE COMPLEX, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR P.ROVERSI,J.WARD,R.DOVESTON,H.KWON,B.ROMARTINEZ ALONSO REVDAT 1 21-FEB-24 8P0D 0 JRNL AUTH J.A.WARD,B.ROMARTINEZ-ALONSO,D.F.KAY,J.BELLAMY-CARTER, JRNL AUTH 2 B.THURAIRAJAH,J.BASRAN,H.KWON,A.C.LENEY,S.MACIP,P.ROVERSI, JRNL AUTH 3 F.W.MUSKETT,R.G.DOVESTON JRNL TITL CHARACTERIZING THE PROTEIN-PROTEIN INTERACTION BETWEEN MDM2 JRNL TITL 2 AND 14-3-3 SIGMA ; PROOF OF CONCEPT FOR SMALL MOLECULE JRNL TITL 3 STABILIZATION. JRNL REF J.BIOL.CHEM. V. 300 05651 2024 JRNL REFN ESSN 1083-351X JRNL PMID 38237679 JRNL DOI 10.1016/J.JBC.2024.105651 REMARK 2 REMARK 2 RESOLUTION. 1.31 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.4 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.31 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.64 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 69663 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 3384 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 (ANGSTROMS) : 1.31 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.32 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.56 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : NULL REMARK 3 BIN R VALUE (WORKING + TEST SET) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3468 REMARK 3 BIN FREE R VALUE : 0.3331 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 75 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 : 1912 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 367 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.65630 REMARK 3 B22 (A**2) : 0.81420 REMARK 3 B33 (A**2) : 1.84210 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) : 0.170 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.051 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.054 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.051 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.050 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 4203 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 7639 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1350 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 699 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 4203 ; 10.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 285 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 4940 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 1.17 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 4.66 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 15.66 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): -23.89 -16.6669 8.323 REMARK 3 T TENSOR REMARK 3 T11: -0.0188 T22: -0.0231 REMARK 3 T33: -0.014 T12: 0.0081 REMARK 3 T13: -0.0007 T23: -0.0059 REMARK 3 L TENSOR REMARK 3 L11: 0.2805 L22: 0.3325 REMARK 3 L33: 0.3632 L12: -0.1434 REMARK 3 L13: 0.1145 L23: -0.1207 REMARK 3 S TENSOR REMARK 3 S11: -0.043 S12: 0.0402 S13: -0.0459 REMARK 3 S21: 0.0402 S22: 0.0338 S23: 0.0452 REMARK 3 S31: -0.0459 S32: 0.0452 S33: 0.0092 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): -14.3893 -14.4315 10.2068 REMARK 3 T TENSOR REMARK 3 T11: 0.0256 T22: 0.0312 REMARK 3 T33: 0.0524 T12: 0.0197 REMARK 3 T13: 0.0148 T23: 0.0442 REMARK 3 L TENSOR REMARK 3 L11: 10.7128 L22: 21.2087 REMARK 3 L33: 4.5468 L12: -1.7544 REMARK 3 L13: 2.9086 L23: 3.0168 REMARK 3 S TENSOR REMARK 3 S11: 0.0731 S12: 0.0936 S13: -0.0997 REMARK 3 S21: 0.0936 S22: 0.1764 S23: 0.3592 REMARK 3 S31: -0.0997 S32: 0.3592 S33: -0.2494 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8P0D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-MAY-23. REMARK 100 THE DEPOSITION ID IS D_1292130371. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-NOV-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 TO 7.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91001 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 3.8.DEV0 REMARK 200 DATA SCALING SOFTWARE : DIALS 3.DEV.615-GFEE771DDC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 69740 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.310 REMARK 200 RESOLUTION RANGE LOW (A) : 1.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.50 REMARK 200 R MERGE (I) : 0.13900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.31 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 13.60 REMARK 200 R MERGE FOR SHELL (I) : 3.20000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: BUSTER 2.10.4 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1 M HEPES PH 7.4 TO 7.6, 0.19 M CACL2, REMARK 280 30 TO 31 % PEG 400, 5 % GLYCEROL, PH 7.5, VAPOR DIFFUSION, REMARK 280 SITTING 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 31.27550 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 31.27550 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 41.29400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.91200 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 41.29400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.91200 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 31.27550 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 41.29400 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 55.91200 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 31.27550 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 41.29400 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 55.91200 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -58.0 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 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 MET A -27 REMARK 465 SER A -26 REMARK 465 TYR A -25 REMARK 465 TYR A -24 REMARK 465 HIS A -23 REMARK 465 HIS A -22 REMARK 465 HIS A -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 ASP A -17 REMARK 465 TYR A -16 REMARK 465 ASP A -15 REMARK 465 ILE A -14 REMARK 465 PRO A -13 REMARK 465 THR A -12 REMARK 465 THR A -11 REMARK 465 GLU A -10 REMARK 465 ASN A -9 REMARK 465 LEU A -8 REMARK 465 TYR A -7 REMARK 465 PHE A -6 REMARK 465 GLN A -5 REMARK 465 GLY A -4 REMARK 465 ARG B 161 REMARK 465 ARG B 162 REMARK 465 ARG B 163 REMARK 465 THR B 168 REMARK 465 GLU B 169 REMARK 465 GLU B 170 REMARK 465 ASN B 171 REMARK 465 SER B 172 REMARK 465 ASP B 173 REMARK 465 GLU B 174 REMARK 465 LEU B 175 REMARK 465 SER B 176 REMARK 465 GLY B 177 REMARK 465 GLU B 178 REMARK 465 ARG B 179 REMARK 465 GLN B 180 REMARK 465 ARG B 181 REMARK 465 LYS B 182 REMARK 465 ARG B 183 REMARK 465 SER B 188 REMARK 465 ILE B 189 REMARK 465 SER B 190 REMARK 465 LEU B 191 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 LYS A 68 CD CE NZ REMARK 470 GLU A 72 CG CD OE1 OE2 REMARK 470 LYS A 160 CE NZ REMARK 470 LYS A 214 CE NZ 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 GLU A 66 HG SER A 69 1.54 REMARK 500 OD1 ASP A 126 HH TYR A 151 1.60 REMARK 500 OD1 ASP A 104 O HOH A 401 1.68 REMARK 500 O HOH A 402 O HOH A 487 1.80 REMARK 500 O HOH A 669 O HOH A 738 2.06 REMARK 500 O HOH A 414 O HOH A 436 2.09 REMARK 500 O HOH A 498 O HOH A 600 2.14 REMARK 500 O HOH A 581 O HOH A 700 2.16 REMARK 500 O HOH A 414 O HOH A 423 2.18 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 OE2 GLU A 110 HH TYR A 213 8445 1.55 REMARK 500 O HOH A 640 O HOH A 702 6444 2.19 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 ASP A 139 C - N - CA ANGL. DEV. = 15.7 DEGREES REMARK 500 LYS A 140 C - N - CA ANGL. DEV. = 20.3 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 ARG A 18 75.95 -106.96 REMARK 500 LYS A 77 -2.09 59.46 REMARK 500 HIS A 106 36.83 -144.78 REMARK 500 ASP A 139 47.96 175.68 REMARK 500 LYS A 140 -52.49 -3.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP A 139 LYS A 140 52.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ASP A 139 15.27 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 MG A 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 2 OE1 REMARK 620 2 GLU A 2 OE1 0.0 REMARK 620 3 HOH A 468 O 85.2 85.2 REMARK 620 4 HOH A 468 O 79.2 79.2 145.8 REMARK 620 5 HOH A 581 O 80.0 80.0 142.9 63.5 REMARK 620 6 HOH A 581 O 142.9 142.9 64.5 113.7 137.1 REMARK 620 7 HOH A 700 O 98.8 98.8 98.5 113.8 51.3 106.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 305 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 35 OE1 REMARK 620 2 GLU A 35 OE2 53.5 REMARK 620 3 GLU A 110 O 80.9 83.3 REMARK 620 4 GLU A 188 OE2 83.7 120.8 47.4 REMARK 620 5 HOH A 564 O 140.2 162.3 108.0 76.1 REMARK 620 6 HOH A 643 O 87.7 79.4 162.7 144.3 89.1 REMARK 620 7 HOH A 647 O 136.8 84.2 86.5 116.5 83.0 93.1 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6YR6 RELATED DB: PDB DBREF 8P0D A 1 231 UNP P31947 1433S_HUMAN 1 231 DBREF 8P0D B 161 191 UNP Q00987 MDM2_HUMAN 161 191 SEQADV 8P0D MET A -27 UNP P31947 INITIATING METHIONINE SEQADV 8P0D SER A -26 UNP P31947 EXPRESSION TAG SEQADV 8P0D TYR A -25 UNP P31947 EXPRESSION TAG SEQADV 8P0D TYR A -24 UNP P31947 EXPRESSION TAG SEQADV 8P0D HIS A -23 UNP P31947 EXPRESSION TAG SEQADV 8P0D HIS A -22 UNP P31947 EXPRESSION TAG SEQADV 8P0D HIS A -21 UNP P31947 EXPRESSION TAG SEQADV 8P0D HIS A -20 UNP P31947 EXPRESSION TAG SEQADV 8P0D HIS A -19 UNP P31947 EXPRESSION TAG SEQADV 8P0D HIS A -18 UNP P31947 EXPRESSION TAG SEQADV 8P0D ASP A -17 UNP P31947 EXPRESSION TAG SEQADV 8P0D TYR A -16 UNP P31947 EXPRESSION TAG SEQADV 8P0D ASP A -15 UNP P31947 EXPRESSION TAG SEQADV 8P0D ILE A -14 UNP P31947 EXPRESSION TAG SEQADV 8P0D PRO A -13 UNP P31947 EXPRESSION TAG SEQADV 8P0D THR A -12 UNP P31947 EXPRESSION TAG SEQADV 8P0D THR A -11 UNP P31947 EXPRESSION TAG SEQADV 8P0D GLU A -10 UNP P31947 EXPRESSION TAG SEQADV 8P0D ASN A -9 UNP P31947 EXPRESSION TAG SEQADV 8P0D LEU A -8 UNP P31947 EXPRESSION TAG SEQADV 8P0D TYR A -7 UNP P31947 EXPRESSION TAG SEQADV 8P0D PHE A -6 UNP P31947 EXPRESSION TAG SEQADV 8P0D GLN A -5 UNP P31947 EXPRESSION TAG SEQADV 8P0D GLY A -4 UNP P31947 EXPRESSION TAG SEQADV 8P0D ALA A -3 UNP P31947 EXPRESSION TAG SEQADV 8P0D MET A -2 UNP P31947 EXPRESSION TAG SEQADV 8P0D GLY A -1 UNP P31947 EXPRESSION TAG SEQADV 8P0D SER A 0 UNP P31947 EXPRESSION TAG SEQRES 1 A 259 MET SER TYR TYR HIS HIS HIS HIS HIS HIS ASP TYR ASP SEQRES 2 A 259 ILE PRO THR THR GLU ASN LEU TYR PHE GLN GLY ALA MET SEQRES 3 A 259 GLY SER MET GLU ARG ALA SER LEU ILE GLN LYS ALA LYS SEQRES 4 A 259 LEU ALA GLU GLN ALA GLU ARG TYR GLU ASP MET ALA ALA SEQRES 5 A 259 PHE MET LYS GLY ALA VAL GLU LYS GLY GLU GLU LEU SER SEQRES 6 A 259 CSD GLU GLU ARG ASN LEU LEU SER VAL ALA TYR LYS ASN SEQRES 7 A 259 VAL VAL GLY GLY GLN ARG ALA ALA TRP ARG VAL LEU SER SEQRES 8 A 259 SER ILE GLU GLN LYS SER ASN GLU GLU GLY SER GLU GLU SEQRES 9 A 259 LYS GLY PRO GLU VAL ARG GLU TYR ARG GLU LYS VAL GLU SEQRES 10 A 259 THR GLU LEU GLN GLY VAL CYS ASP THR VAL LEU GLY LEU SEQRES 11 A 259 LEU ASP SER HIS LEU ILE LYS GLU ALA GLY ASP ALA GLU SEQRES 12 A 259 SER ARG VAL PHE TYR LEU LYS MET LYS GLY ASP TYR TYR SEQRES 13 A 259 ARG TYR LEU ALA GLU VAL ALA THR GLY ASP ASP LYS LYS SEQRES 14 A 259 ARG ILE ILE ASP SER ALA ARG SER ALA TYR GLN GLU ALA SEQRES 15 A 259 MET ASP ILE SER LYS LYS GLU MET PRO PRO THR ASN PRO SEQRES 16 A 259 ILE ARG LEU GLY LEU ALA LEU ASN PHE SER VAL PHE HIS SEQRES 17 A 259 TYR GLU ILE ALA ASN SER PRO GLU GLU ALA ILE SER LEU SEQRES 18 A 259 ALA LYS THR THR PHE ASP GLU ALA MET ALA ASP LEU HIS SEQRES 19 A 259 THR LEU SER GLU ASP SER TYR LYS ASP SER THR LEU ILE SEQRES 20 A 259 MET GLN LEU LEU ARG ASP ASN LEU THR LEU TRP THR SEQRES 1 B 31 ARG ARG ARG ALA ILE SEP GLU THR GLU GLU ASN SER ASP SEQRES 2 B 31 GLU LEU SER GLY GLU ARG GLN ARG LYS ARG HIS LYS SEP SEQRES 3 B 31 ASP SER ILE SER LEU MODRES 8P0D CSD A 38 CYS MODIFIED RESIDUE MODRES 8P0D SEP B 166 SER MODIFIED RESIDUE MODRES 8P0D SEP B 186 SER MODIFIED RESIDUE HET CSD A 38 8 HET SEP B 166 10 HET SEP B 186 10 HET GOL A 301 6 HET PEG A 302 7 HET CL A 303 1 HET MG A 304 1 HET MG A 305 1 HETNAM CSD 3-SULFINOALANINE HETNAM SEP PHOSPHOSERINE HETNAM GOL GLYCEROL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION HETSYN CSD S-CYSTEINESULFINIC ACID; S-SULFINOCYSTEINE HETSYN SEP PHOSPHONOSERINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 CSD C3 H7 N O4 S FORMUL 2 SEP 2(C3 H8 N O6 P) FORMUL 3 GOL C3 H8 O3 FORMUL 4 PEG C4 H10 O3 FORMUL 5 CL CL 1- FORMUL 6 MG 2(MG 2+) FORMUL 8 HOH *367(H2 O) HELIX 1 AA1 GLU A 2 ALA A 16 1 15 HELIX 2 AA2 ARG A 18 LYS A 32 1 15 HELIX 3 AA3 SER A 37 ASN A 70 1 34 HELIX 4 AA4 PRO A 79 SER A 105 1 27 HELIX 5 AA5 HIS A 106 ALA A 111 1 6 HELIX 6 AA6 ASP A 113 ALA A 135 1 23 HELIX 7 AA7 ASP A 139 MET A 162 1 24 HELIX 8 AA8 ASN A 166 ILE A 183 1 18 HELIX 9 AA9 SER A 186 ALA A 203 1 18 HELIX 10 AB1 ASP A 204 LEU A 208 5 5 HELIX 11 AB2 SER A 209 THR A 231 1 23 LINK C SER A 37 N CSD A 38 1555 1555 1.34 LINK C CSD A 38 N GLU A 39 1555 1555 1.33 LINK C AILE B 165 N ASEP B 166 1555 1555 1.34 LINK C ASEP B 166 N AGLU B 167 1555 1555 1.35 LINK C BLYS B 185 N BSEP B 186 1555 1555 1.33 LINK C BSEP B 186 N BASP B 187 1555 1555 1.33 LINK OE1 GLU A 2 MG MG A 304 1555 1555 2.24 LINK OE1 GLU A 2 MG MG A 304 1555 3454 2.66 LINK OE1 GLU A 35 MG MG A 305 1555 1555 2.56 LINK OE2 GLU A 35 MG MG A 305 1555 1555 2.29 LINK O GLU A 110 MG MG A 305 1555 1555 2.24 LINK OE2 GLU A 188 MG MG A 305 1555 6445 2.41 LINK MG MG A 304 O HOH A 468 1555 1555 2.35 LINK MG MG A 304 O HOH A 468 1555 3454 2.66 LINK MG MG A 304 O HOH A 581 1555 1555 2.21 LINK MG MG A 304 O HOH A 581 1555 3454 2.50 LINK MG MG A 304 O HOH A 700 1555 1555 2.68 LINK MG MG A 305 O HOH A 564 1555 6444 2.41 LINK MG MG A 305 O HOH A 643 1555 1555 2.42 LINK MG MG A 305 O HOH A 647 1555 1555 2.24 CISPEP 1 SER A 105 HIS A 106 0 8.62 CISPEP 2 GLY A 137 ASP A 138 0 1.92 CRYST1 82.588 111.824 62.551 90.00 90.00 90.00 C 2 2 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 0.012108 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008943 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015987 0.00000