HEADER TRANSCRIPTION 08-JUL-16 5LGY TITLE LYSINE 120-ACETYLATED P53 DNA BINDING DOMAIN IN A COMPLEX WITH THE BAX TITLE 2 RESPONSE ELEMENT. COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELLULAR TUMOR ANTIGEN P53; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 94-291; COMPND 5 SYNONYM: ANTIGEN NY-CO-13,PHOSPHOPROTEIN P53,TUMOR SUPPRESSOR P53; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'- COMPND 9 D(*TP*CP*AP*CP*AP*AP*GP*TP*TP*AP*GP*AP*GP*AP*CP*AP*AP*GP*CP*CP*T)- COMPND 10 3'); COMPND 11 CHAIN: E; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA (5'- COMPND 15 D(*AP*GP*GP*CP*TP*TP*GP*TP*CP*TP*CP*TP*AP*AP*CP*TP*TP*GP*TP*GP*A)- COMPND 16 3'); COMPND 17 CHAIN: F; COMPND 18 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: TP53, P53; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630 KEYWDS TRANSCRIPTION, ACETYLATION, TRANSCRIPTION FACTOR, POST-TRANSLATIONAL KEYWDS 2 MODIFICATION, TUMOR SUPPRESSOR, DNA BINDING SPECIFICITY, APOPTOSIS, KEYWDS 3 INDUCED FIT, GENETIC CODE EXPANSION EXPDTA X-RAY DIFFRACTION AUTHOR E.ARBELY,R.VAINER REVDAT 4 10-JAN-24 5LGY 1 LINK REVDAT 3 20-FEB-19 5LGY 1 REMARK LINK REVDAT 2 17-AUG-16 5LGY 1 JRNL REVDAT 1 27-JUL-16 5LGY 0 SPRSDE 27-JUL-16 5LGY 5BUB JRNL AUTH R.VAINER,S.COHEN,A.SHAHAR,R.ZARIVACH,E.ARBELY JRNL TITL STRUCTURAL BASIS FOR P53 LYS120-ACETYLATION-DEPENDENT JRNL TITL 2 DNA-BINDING MODE. JRNL REF J.MOL.BIOL. V. 428 3013 2016 JRNL REFN ESSN 1089-8638 JRNL PMID 27338200 JRNL DOI 10.1016/J.JMB.2016.06.009 REMARK 2 REMARK 2 RESOLUTION. 2.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.46 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.970 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 21559 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.240 REMARK 3 R VALUE (WORKING SET) : 0.238 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.870 REMARK 3 FREE R VALUE TEST SET COUNT : 1049 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 43.4692 - 5.5764 1.00 3012 157 0.1967 0.2307 REMARK 3 2 5.5764 - 4.4275 1.00 2925 170 0.1904 0.2407 REMARK 3 3 4.4275 - 3.8683 1.00 2947 145 0.2127 0.2500 REMARK 3 4 3.8683 - 3.5148 0.99 2903 138 0.2725 0.2978 REMARK 3 5 3.5148 - 3.2629 1.00 2934 130 0.2699 0.3583 REMARK 3 6 3.2629 - 3.0706 1.00 2890 157 0.3158 0.3562 REMARK 3 7 3.0706 - 2.9169 0.99 2899 152 0.3597 0.3690 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.460 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 7317 REMARK 3 ANGLE : 1.303 10090 REMARK 3 CHIRALITY : 0.076 1100 REMARK 3 PLANARITY : 0.012 1184 REMARK 3 DIHEDRAL : 25.319 2841 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5LGY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1200000703. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-SEP-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.954 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21618 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.920 REMARK 200 RESOLUTION RANGE LOW (A) : 48.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.19400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.09 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 7.60 REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHASER REMARK 200 STARTING MODEL: 3KMD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.22 M AMMONIUM ACETATE, 10% W/V PEG REMARK 280 3350, TRI-SODIUM CITRATE PH 6.1, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 286K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 35.17200 REMARK 290 SMTRY3 2 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 42600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -76.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 SER A 94 REMARK 465 SER C 94 REMARK 465 SER D 94 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 THR B 284 ND2 ASN B 288 1.13 REMARK 500 OD1 ASP A 208 CG2 THR A 211 1.14 REMARK 500 N6 DA E 17 O4 DT F 5 1.66 REMARK 500 N1 DA E 17 N3 DT F 5 1.72 REMARK 500 N6 DA E 12 O4 DT F 10 1.75 REMARK 500 NH1 ARG D 273 OP2 DT F 17 1.76 REMARK 500 NH2 ARG D 175 O MET D 237 1.90 REMARK 500 OG SER B 95 O THR B 211 1.98 REMARK 500 O2 DT E 21 N2 DG F 2 2.03 REMARK 500 NH1 ARG B 156 O HOH B 401 2.03 REMARK 500 OD1 ASP A 208 CB THR A 211 2.12 REMARK 500 C THR B 284 ND2 ASN B 288 2.15 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 OD2 ASP B 207 NH2 ARG D 174 2555 1.92 REMARK 500 REMARK 500 REMARK: NULL 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 DA E 5 O3' DA E 6 P -0.078 REMARK 500 DA E 6 O3' DG E 7 P -0.081 REMARK 500 DA E 16 O3' DA E 17 P -0.084 REMARK 500 DA E 17 O3' DG E 18 P -0.081 REMARK 500 DC F 4 O3' DT F 5 P -0.080 REMARK 500 DT F 5 O3' DT F 6 P -0.077 REMARK 500 DT F 6 O3' DG F 7 P -0.096 REMARK 500 DG F 7 O3' DT F 8 P -0.073 REMARK 500 DC F 9 O3' DT F 10 P -0.076 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 DT E 1 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC F 11 O4' - C1' - N1 ANGL. DEV. = 3.3 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 THR A 118 42.75 -88.42 REMARK 500 SER A 121 12.16 85.54 REMARK 500 SER A 183 90.94 -63.19 REMARK 500 ARG A 209 -48.02 -28.29 REMARK 500 SER B 121 20.57 -145.48 REMARK 500 LEU B 188 -49.36 -134.14 REMARK 500 GLU B 287 15.99 -68.64 REMARK 500 SER C 183 71.89 62.49 REMARK 500 ARG C 202 43.90 -104.93 REMARK 500 TYR D 103 105.55 -162.37 REMARK 500 ARG D 174 -169.73 -120.39 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 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 176 SG REMARK 620 2 HIS A 179 ND1 80.3 REMARK 620 3 CYS A 238 SG 107.9 112.9 REMARK 620 4 CYS A 242 SG 121.7 113.9 115.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 176 SG REMARK 620 2 HIS B 179 ND1 98.7 REMARK 620 3 CYS B 238 SG 106.2 77.9 REMARK 620 4 CYS B 242 SG 144.2 103.1 105.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 176 SG REMARK 620 2 HIS C 179 ND1 81.5 REMARK 620 3 CYS C 238 SG 103.0 115.7 REMARK 620 4 CYS C 242 SG 117.6 115.0 118.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 176 SG REMARK 620 2 HIS D 179 ND1 85.0 REMARK 620 3 CYS D 238 SG 110.9 107.7 REMARK 620 4 CYS D 242 SG 128.6 107.2 112.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN D 301 DBREF 5LGY A 94 291 UNP P04637 P53_HUMAN 94 291 DBREF 5LGY B 94 291 UNP P04637 P53_HUMAN 94 291 DBREF 5LGY C 94 291 UNP P04637 P53_HUMAN 94 291 DBREF 5LGY D 94 291 UNP P04637 P53_HUMAN 94 291 DBREF 5LGY E 1 21 PDB 5LGY 5LGY 1 21 DBREF 5LGY F 1 21 PDB 5LGY 5LGY 1 21 SEQRES 1 A 198 SER SER SER VAL PRO SER GLN LYS THR TYR GLN GLY SER SEQRES 2 A 198 TYR GLY PHE ARG LEU GLY PHE LEU HIS SER GLY THR ALA SEQRES 3 A 198 ALY SER VAL THR CYS THR TYR SER PRO ALA LEU ASN LYS SEQRES 4 A 198 MET PHE CYS GLN LEU ALA LYS THR CYS PRO VAL GLN LEU SEQRES 5 A 198 TRP VAL ASP SER THR PRO PRO PRO GLY THR ARG VAL ARG SEQRES 6 A 198 ALA MET ALA ILE TYR LYS GLN SER GLN HIS MET THR GLU SEQRES 7 A 198 VAL VAL ARG ARG CYS PRO HIS HIS GLU ARG CYS SER ASP SEQRES 8 A 198 SER ASP GLY LEU ALA PRO PRO GLN HIS LEU ILE ARG VAL SEQRES 9 A 198 GLU GLY ASN LEU ARG VAL GLU TYR LEU ASP ASP ARG ASN SEQRES 10 A 198 THR PHE ARG HIS SER VAL VAL VAL PRO TYR GLU PRO PRO SEQRES 11 A 198 GLU VAL GLY SER ASP CYS THR THR ILE HIS TYR ASN TYR SEQRES 12 A 198 MET CYS ASN SER SER CYS MET GLY GLY MET ASN ARG ARG SEQRES 13 A 198 PRO ILE LEU THR ILE ILE THR LEU GLU ASP SER SER GLY SEQRES 14 A 198 ASN LEU LEU GLY ARG ASN SER PHE GLU VAL ARG VAL CYS SEQRES 15 A 198 ALA CYS PRO GLY ARG ASP ARG ARG THR GLU GLU GLU ASN SEQRES 16 A 198 LEU ARG LYS SEQRES 1 B 198 SER SER SER VAL PRO SER GLN LYS THR TYR GLN GLY SER SEQRES 2 B 198 TYR GLY PHE ARG LEU GLY PHE LEU HIS SER GLY THR ALA SEQRES 3 B 198 ALY SER VAL THR CYS THR TYR SER PRO ALA LEU ASN LYS SEQRES 4 B 198 MET PHE CYS GLN LEU ALA LYS THR CYS PRO VAL GLN LEU SEQRES 5 B 198 TRP VAL ASP SER THR PRO PRO PRO GLY THR ARG VAL ARG SEQRES 6 B 198 ALA MET ALA ILE TYR LYS GLN SER GLN HIS MET THR GLU SEQRES 7 B 198 VAL VAL ARG ARG CYS PRO HIS HIS GLU ARG CYS SER ASP SEQRES 8 B 198 SER ASP GLY LEU ALA PRO PRO GLN HIS LEU ILE ARG VAL SEQRES 9 B 198 GLU GLY ASN LEU ARG VAL GLU TYR LEU ASP ASP ARG ASN SEQRES 10 B 198 THR PHE ARG HIS SER VAL VAL VAL PRO TYR GLU PRO PRO SEQRES 11 B 198 GLU VAL GLY SER ASP CYS THR THR ILE HIS TYR ASN TYR SEQRES 12 B 198 MET CYS ASN SER SER CYS MET GLY GLY MET ASN ARG ARG SEQRES 13 B 198 PRO ILE LEU THR ILE ILE THR LEU GLU ASP SER SER GLY SEQRES 14 B 198 ASN LEU LEU GLY ARG ASN SER PHE GLU VAL ARG VAL CYS SEQRES 15 B 198 ALA CYS PRO GLY ARG ASP ARG ARG THR GLU GLU GLU ASN SEQRES 16 B 198 LEU ARG LYS SEQRES 1 C 198 SER SER SER VAL PRO SER GLN LYS THR TYR GLN GLY SER SEQRES 2 C 198 TYR GLY PHE ARG LEU GLY PHE LEU HIS SER GLY THR ALA SEQRES 3 C 198 ALY SER VAL THR CYS THR TYR SER PRO ALA LEU ASN LYS SEQRES 4 C 198 MET PHE CYS GLN LEU ALA LYS THR CYS PRO VAL GLN LEU SEQRES 5 C 198 TRP VAL ASP SER THR PRO PRO PRO GLY THR ARG VAL ARG SEQRES 6 C 198 ALA MET ALA ILE TYR LYS GLN SER GLN HIS MET THR GLU SEQRES 7 C 198 VAL VAL ARG ARG CYS PRO HIS HIS GLU ARG CYS SER ASP SEQRES 8 C 198 SER ASP GLY LEU ALA PRO PRO GLN HIS LEU ILE ARG VAL SEQRES 9 C 198 GLU GLY ASN LEU ARG VAL GLU TYR LEU ASP ASP ARG ASN SEQRES 10 C 198 THR PHE ARG HIS SER VAL VAL VAL PRO TYR GLU PRO PRO SEQRES 11 C 198 GLU VAL GLY SER ASP CYS THR THR ILE HIS TYR ASN TYR SEQRES 12 C 198 MET CYS ASN SER SER CYS MET GLY GLY MET ASN ARG ARG SEQRES 13 C 198 PRO ILE LEU THR ILE ILE THR LEU GLU ASP SER SER GLY SEQRES 14 C 198 ASN LEU LEU GLY ARG ASN SER PHE GLU VAL ARG VAL CYS SEQRES 15 C 198 ALA CYS PRO GLY ARG ASP ARG ARG THR GLU GLU GLU ASN SEQRES 16 C 198 LEU ARG LYS SEQRES 1 D 198 SER SER SER VAL PRO SER GLN LYS THR TYR GLN GLY SER SEQRES 2 D 198 TYR GLY PHE ARG LEU GLY PHE LEU HIS SER GLY THR ALA SEQRES 3 D 198 ALY SER VAL THR CYS THR TYR SER PRO ALA LEU ASN LYS SEQRES 4 D 198 MET PHE CYS GLN LEU ALA LYS THR CYS PRO VAL GLN LEU SEQRES 5 D 198 TRP VAL ASP SER THR PRO PRO PRO GLY THR ARG VAL ARG SEQRES 6 D 198 ALA MET ALA ILE TYR LYS GLN SER GLN HIS MET THR GLU SEQRES 7 D 198 VAL VAL ARG ARG CYS PRO HIS HIS GLU ARG CYS SER ASP SEQRES 8 D 198 SER ASP GLY LEU ALA PRO PRO GLN HIS LEU ILE ARG VAL SEQRES 9 D 198 GLU GLY ASN LEU ARG VAL GLU TYR LEU ASP ASP ARG ASN SEQRES 10 D 198 THR PHE ARG HIS SER VAL VAL VAL PRO TYR GLU PRO PRO SEQRES 11 D 198 GLU VAL GLY SER ASP CYS THR THR ILE HIS TYR ASN TYR SEQRES 12 D 198 MET CYS ASN SER SER CYS MET GLY GLY MET ASN ARG ARG SEQRES 13 D 198 PRO ILE LEU THR ILE ILE THR LEU GLU ASP SER SER GLY SEQRES 14 D 198 ASN LEU LEU GLY ARG ASN SER PHE GLU VAL ARG VAL CYS SEQRES 15 D 198 ALA CYS PRO GLY ARG ASP ARG ARG THR GLU GLU GLU ASN SEQRES 16 D 198 LEU ARG LYS SEQRES 1 E 21 DT DC DA DC DA DA DG DT DT DA DG DA DG SEQRES 2 E 21 DA DC DA DA DG DC DC DT SEQRES 1 F 21 DA DG DG DC DT DT DG DT DC DT DC DT DA SEQRES 2 F 21 DA DC DT DT DG DT DG DA MODRES 5LGY ALY A 120 LYS MODIFIED RESIDUE MODRES 5LGY ALY B 120 LYS MODIFIED RESIDUE MODRES 5LGY ALY C 120 LYS MODIFIED RESIDUE MODRES 5LGY ALY D 120 LYS MODIFIED RESIDUE HET ALY A 120 12 HET ALY B 120 12 HET ALY C 120 12 HET ALY D 120 12 HET ZN A 401 1 HET ZN B 301 1 HET ZN C 301 1 HET ZN D 301 1 HETNAM ALY N(6)-ACETYLLYSINE HETNAM ZN ZINC ION FORMUL 1 ALY 4(C8 H16 N2 O3) FORMUL 7 ZN 4(ZN 2+) FORMUL 11 HOH *20(H2 O) HELIX 1 AA1 GLN A 104 GLY A 108 5 5 HELIX 2 AA2 CYS A 176 ARG A 181 1 6 HELIX 3 AA3 CYS A 277 LEU A 289 1 13 HELIX 4 AA4 GLN B 104 GLY B 108 5 5 HELIX 5 AA5 GLN B 165 THR B 170 1 6 HELIX 6 AA6 CYS B 277 ARG B 290 1 14 HELIX 7 AA7 GLN C 104 GLY C 108 5 5 HELIX 8 AA8 CYS C 176 ARG C 181 1 6 HELIX 9 AA9 CYS C 277 GLU C 287 1 11 HELIX 10 AB1 GLN D 104 GLY D 108 5 5 HELIX 11 AB2 HIS D 178 CYS D 182 5 5 HELIX 12 AB3 CYS D 277 LEU D 289 1 13 SHEET 1 AA1 4 ARG A 110 GLY A 112 0 SHEET 2 AA1 4 CYS A 141 TRP A 146 -1 O TRP A 146 N ARG A 110 SHEET 3 AA1 4 THR A 230 TYR A 236 -1 O ILE A 232 N VAL A 143 SHEET 4 AA1 4 ILE A 195 VAL A 197 -1 N ARG A 196 O ASN A 235 SHEET 1 AA2 7 CYS A 124 SER A 127 0 SHEET 2 AA2 7 LYS A 132 CYS A 135 -1 O LYS A 132 N SER A 127 SHEET 3 AA2 7 LEU A 264 VAL A 274 1 O GLU A 271 N MET A 133 SHEET 4 AA2 7 ILE A 251 GLU A 258 -1 N LEU A 257 O GLY A 266 SHEET 5 AA2 7 ARG A 156 TYR A 163 -1 N MET A 160 O ILE A 254 SHEET 6 AA2 7 SER A 215 PRO A 219 -1 O VAL A 218 N VAL A 157 SHEET 7 AA2 7 GLU A 204 LEU A 206 -1 N GLU A 204 O VAL A 217 SHEET 1 AA3 4 ARG B 110 GLY B 112 0 SHEET 2 AA3 4 CYS B 141 TRP B 146 -1 O TRP B 146 N ARG B 110 SHEET 3 AA3 4 THR B 230 TYR B 236 -1 O ILE B 232 N VAL B 143 SHEET 4 AA3 4 ILE B 195 GLU B 198 -1 N GLU B 198 O HIS B 233 SHEET 1 AA4 7 CYS B 124 SER B 127 0 SHEET 2 AA4 7 LYS B 132 CYS B 135 -1 O LYS B 132 N SER B 127 SHEET 3 AA4 7 LEU B 264 VAL B 274 1 O GLU B 271 N MET B 133 SHEET 4 AA4 7 ILE B 251 GLU B 258 -1 N LEU B 257 O GLY B 266 SHEET 5 AA4 7 ARG B 156 TYR B 163 -1 N MET B 160 O ILE B 254 SHEET 6 AA4 7 HIS B 214 PRO B 219 -1 O VAL B 216 N ALA B 159 SHEET 7 AA4 7 GLU B 204 ASP B 207 -1 N LEU B 206 O SER B 215 SHEET 1 AA5 4 ARG C 110 GLY C 112 0 SHEET 2 AA5 4 CYS C 141 TRP C 146 -1 O TRP C 146 N ARG C 110 SHEET 3 AA5 4 THR C 230 TYR C 236 -1 O ILE C 232 N VAL C 143 SHEET 4 AA5 4 ILE C 195 GLU C 198 -1 N ARG C 196 O ASN C 235 SHEET 1 AA6 7 CYS C 124 SER C 127 0 SHEET 2 AA6 7 LYS C 132 CYS C 135 -1 O PHE C 134 N THR C 125 SHEET 3 AA6 7 LEU C 264 VAL C 274 1 O GLU C 271 N MET C 133 SHEET 4 AA6 7 ILE C 251 GLU C 258 -1 N LEU C 257 O GLY C 266 SHEET 5 AA6 7 ARG C 156 TYR C 163 -1 N MET C 160 O ILE C 254 SHEET 6 AA6 7 HIS C 214 PRO C 219 -1 O VAL C 218 N VAL C 157 SHEET 7 AA6 7 GLU C 204 ASP C 207 -1 N LEU C 206 O SER C 215 SHEET 1 AA7 4 ARG D 110 GLY D 112 0 SHEET 2 AA7 4 CYS D 141 TRP D 146 -1 O GLN D 144 N GLY D 112 SHEET 3 AA7 4 THR D 230 TYR D 236 -1 O ILE D 232 N VAL D 143 SHEET 4 AA7 4 ILE D 195 VAL D 197 -1 N ARG D 196 O ASN D 235 SHEET 1 AA8 7 CYS D 124 SER D 127 0 SHEET 2 AA8 7 LYS D 132 CYS D 135 -1 O LYS D 132 N SER D 127 SHEET 3 AA8 7 LEU D 264 VAL D 274 1 O GLU D 271 N MET D 133 SHEET 4 AA8 7 ILE D 251 GLU D 258 -1 N LEU D 257 O GLY D 266 SHEET 5 AA8 7 ARG D 156 TYR D 163 -1 N MET D 160 O ILE D 254 SHEET 6 AA8 7 HIS D 214 PRO D 219 -1 O VAL D 218 N VAL D 157 SHEET 7 AA8 7 GLU D 204 ASP D 207 -1 N LEU D 206 O SER D 215 LINK C ALA A 119 N ALY A 120 1555 1555 1.32 LINK C ALY A 120 N SER A 121 1555 1555 1.32 LINK C ALA B 119 N ALY B 120 1555 1555 1.33 LINK C ALY B 120 N SER B 121 1555 1555 1.33 LINK C ALA C 119 N ALY C 120 1555 1555 1.32 LINK C ALY C 120 N SER C 121 1555 1555 1.32 LINK CH3 ALY C 120 C7 DT F 12 1555 1555 1.42 LINK C ALA D 119 N ALY D 120 1555 1555 1.33 LINK C ALY D 120 N SER D 121 1555 1555 1.33 LINK SG CYS A 176 ZN ZN A 401 1555 1555 2.47 LINK ND1 HIS A 179 ZN ZN A 401 1555 1555 2.09 LINK SG CYS A 238 ZN ZN A 401 1555 1555 2.36 LINK SG CYS A 242 ZN ZN A 401 1555 1555 2.38 LINK SG CYS B 176 ZN ZN B 301 1555 1555 2.36 LINK ND1 HIS B 179 ZN ZN B 301 1555 1555 2.29 LINK SG CYS B 238 ZN ZN B 301 1555 1555 2.46 LINK SG CYS B 242 ZN ZN B 301 1555 1555 2.31 LINK SG CYS C 176 ZN ZN C 301 1555 1555 2.44 LINK ND1 HIS C 179 ZN ZN C 301 1555 1555 2.07 LINK SG CYS C 238 ZN ZN C 301 1555 1555 2.33 LINK SG CYS C 242 ZN ZN C 301 1555 1555 2.43 LINK SG CYS D 176 ZN ZN D 301 1555 1555 2.35 LINK ND1 HIS D 179 ZN ZN D 301 1555 1555 2.18 LINK SG CYS D 238 ZN ZN D 301 1555 1555 2.37 LINK SG CYS D 242 ZN ZN D 301 1555 1555 2.38 CISPEP 1 VAL B 225 GLY B 226 0 20.79 CISPEP 2 ARG B 290 LYS B 291 0 -26.33 SITE 1 AC1 4 CYS A 176 HIS A 179 CYS A 238 CYS A 242 SITE 1 AC2 4 CYS B 176 HIS B 179 CYS B 238 CYS B 242 SITE 1 AC3 4 CYS C 176 HIS C 179 CYS C 238 CYS C 242 SITE 1 AC4 4 CYS D 176 HIS D 179 CYS D 238 CYS D 242 CRYST1 67.703 70.344 104.995 90.00 95.83 90.00 P 1 21 1 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 0.014770 0.000000 0.001507 0.00000 SCALE2 0.000000 0.014216 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009574 0.00000