HEADER TRANSCRIPTION 10-NOV-16 5MCT TITLE NEW INSIGHTS INTO THE ROLE OF DNA SHAPE ON ITS RECOGNITION BY P53 TITLE 2 PROTEINS (COMPLEX P53DBD-LHG1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELLULAR TUMOR ANTIGEN P53; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: P53 DNA BINDING DOMAIN; 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; COMPND 9 CHAIN: C; COMPND 10 FRAGMENT: DNA; COMPND 11 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 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET27B; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630; SOURCE 14 OTHER_DETAILS: SYNTHESISED BY IDT KEYWDS TRANSCRIPTION, P53, TRANSCRIPTION FACTOR, DNA BINDING, DNA KEYWDS 2 RECOGNITION, HOOGSTEEN BASE-PAIRING, ISOGUANINE, 2-OXO-ADENINE, KEYWDS 3 TRANSCRIPTION REGULATION, APOPTOSIS, BIOLOGICAL RHYTHMS, CELL CYCLE, KEYWDS 4 NUCLEUS, TUMOR SUPPRESSOR, ANTIGEN NY-CO-13, PHOSPHOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.GOLOVENKO,H.ROZENBERG,Z.SHAKKED REVDAT 4 17-JAN-24 5MCT 1 REMARK REVDAT 3 02-JAN-19 5MCT 1 TITLE JRNL REVDAT 2 27-JUN-18 5MCT 1 REMARK REVDAT 1 13-JUN-18 5MCT 0 JRNL AUTH D.GOLOVENKO,B.BRAUNING,P.VYAS,T.E.HARAN,H.ROZENBERG, JRNL AUTH 2 Z.SHAKKED JRNL TITL NEW INSIGHTS INTO THE ROLE OF DNA SHAPE ON ITS RECOGNITION JRNL TITL 2 BY P53 PROTEINS. JRNL REF STRUCTURE V. 26 1237 2018 JRNL REFN ISSN 1878-4186 JRNL PMID 30057026 JRNL DOI 10.1016/J.STR.2018.06.006 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.53 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 79745 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.147 REMARK 3 R VALUE (WORKING SET) : 0.144 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 3974 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 46.5534 - 3.4844 0.97 5595 298 0.1314 0.2020 REMARK 3 2 3.4844 - 2.7658 0.99 5594 297 0.1371 0.1674 REMARK 3 3 2.7658 - 2.4162 0.99 5545 294 0.1385 0.1927 REMARK 3 4 2.4162 - 2.1953 0.99 5524 290 0.1375 0.1720 REMARK 3 5 2.1953 - 2.0379 0.98 5496 273 0.1392 0.1788 REMARK 3 6 2.0379 - 1.9178 0.98 5418 292 0.1384 0.1786 REMARK 3 7 1.9178 - 1.8217 0.98 5463 279 0.1433 0.1775 REMARK 3 8 1.8217 - 1.7424 0.97 5406 286 0.1420 0.1756 REMARK 3 9 1.7424 - 1.6753 0.97 5416 280 0.1476 0.1950 REMARK 3 10 1.6753 - 1.6175 0.97 5377 285 0.1512 0.1803 REMARK 3 11 1.6175 - 1.5669 0.97 5380 280 0.1647 0.2102 REMARK 3 12 1.5669 - 1.5221 0.96 5315 286 0.1709 0.2109 REMARK 3 13 1.5221 - 1.4821 0.96 5309 292 0.1856 0.2354 REMARK 3 14 1.4821 - 1.4459 0.89 4933 242 0.2320 0.2739 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.120 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.780 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.52 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.72 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 : 0.006 3968 REMARK 3 ANGLE : 0.876 5496 REMARK 3 CHIRALITY : 0.076 590 REMARK 3 PLANARITY : 0.005 667 REMARK 3 DIHEDRAL : 21.953 1595 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 10 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.7591 27.0918 86.0474 REMARK 3 T TENSOR REMARK 3 T11: 0.0624 T22: 0.0997 REMARK 3 T33: 0.0925 T12: 0.0395 REMARK 3 T13: -0.0423 T23: 0.0060 REMARK 3 L TENSOR REMARK 3 L11: 0.3631 L22: 0.5948 REMARK 3 L33: 0.0974 L12: 0.1396 REMARK 3 L13: -0.1865 L23: -0.1003 REMARK 3 S TENSOR REMARK 3 S11: 0.0378 S12: -0.0632 S13: 0.0618 REMARK 3 S21: 0.0305 S22: -0.0138 S23: -0.0355 REMARK 3 S31: 0.0147 S32: -0.0081 S33: 0.1208 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 11 THROUGH 20 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.5906 27.0926 51.8648 REMARK 3 T TENSOR REMARK 3 T11: 0.0797 T22: 0.1231 REMARK 3 T33: 0.0582 T12: -0.0548 REMARK 3 T13: 0.0301 T23: -0.0149 REMARK 3 L TENSOR REMARK 3 L11: 0.3333 L22: 0.4365 REMARK 3 L33: 0.1251 L12: 0.1817 REMARK 3 L13: -0.1963 L23: -0.1457 REMARK 3 S TENSOR REMARK 3 S11: 0.0396 S12: -0.0217 S13: 0.0441 REMARK 3 S21: -0.0095 S22: -0.0099 S23: -0.0306 REMARK 3 S31: -0.0218 S32: -0.0150 S33: 0.1037 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 5MCT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1200002281. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-APR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976250 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 80131 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.41900 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 2.5.7 REMARK 200 STARTING MODEL: PDBID 1TSR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M AMMONIUM CITRATE, 12% W/V REMARK 280 POLYETHYLENE GLYCOL 3,350, PH 7.0, EVAPORATION, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 68.74300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.73000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 68.74300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.73000 REMARK 290 SMTRY3 4 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 300 THE ASSEMBLY REPRESENTED IN THIS ENTRY HAS REGULAR REMARK 300 CYCLIC POINT SYMMETRY (SCHOENFLIES SYMBOL = C4). 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 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 -8.67427 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 136.73113 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 DT C 0 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 LEU A 188 CD1 CD2 REMARK 470 LYS A 291 CE NZ REMARK 470 LYS A 292 CD CE NZ REMARK 470 LEU B 188 CD1 CD2 REMARK 470 LYS B 291 CE NZ REMARK 470 LYS B 292 CD 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 HG1 THR A 140 OE2 GLU A 198 1.59 REMARK 500 HG1 THR B 140 OE2 GLU B 198 1.59 REMARK 500 O HOH C 104 O HOH C 177 1.99 REMARK 500 O HOH C 102 O HOH C 173 2.00 REMARK 500 O HOH A 591 O HOH A 638 2.04 REMARK 500 O HOH B 589 O HOH B 637 2.05 REMARK 500 O HOH A 503 O HOH A 602 2.11 REMARK 500 O HOH A 481 O HOH A 633 2.12 REMARK 500 O HOH B 504 O HOH B 600 2.12 REMARK 500 O HOH B 464 O HOH B 631 2.12 REMARK 500 O HOH A 604 O HOH A 626 2.15 REMARK 500 O HOH B 402 O HOH B 587 2.15 REMARK 500 O HOH B 603 O HOH B 625 2.15 REMARK 500 OP2 DC C 20 O HOH C 101 2.16 REMARK 500 O HOH A 404 O HOH A 592 2.17 REMARK 500 O HOH A 413 O HOH A 653 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 O HOH C 167 O HOH C 178 2557 2.09 REMARK 500 O HOH A 554 O HOH B 582 4557 2.09 REMARK 500 O HOH C 158 O HOH C 175 2557 2.09 REMARK 500 O HOH A 581 O HOH B 554 4547 2.09 REMARK 500 O HOH B 544 O HOH B 632 1545 2.14 REMARK 500 O HOH A 545 O HOH A 627 1545 2.15 REMARK 500 O HOH C 141 O HOH C 166 2557 2.18 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 DG C 3 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DG C 13 O4' - C1' - N9 ANGL. DEV. = 2.3 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 ALA A 138 -0.80 71.63 REMARK 500 ALA B 138 -1.16 71.37 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 653 DISTANCE = 5.89 ANGSTROMS 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 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 176 SG REMARK 620 2 HIS A 179 ND1 100.7 REMARK 620 3 CYS A 238 SG 109.4 111.2 REMARK 620 4 CYS A 242 SG 115.3 104.7 114.5 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 101.7 REMARK 620 3 CYS B 238 SG 111.0 112.1 REMARK 620 4 CYS B 242 SG 114.2 103.5 113.5 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3KZ8 RELATED DB: PDB REMARK 900 RELATED ID: 5MCU RELATED DB: PDB REMARK 900 RELATED ID: 5MCV RELATED DB: PDB REMARK 900 RELATED ID: 5MCW RELATED DB: PDB REMARK 900 RELATED ID: 5MG7 RELATED DB: PDB REMARK 900 RELATED ID: 5MF7 RELATED DB: PDB REMARK 900 RELATED ID: 6FJ5 RELATED DB: PDB DBREF 5MCT A 94 293 UNP P04637 P53_HUMAN 94 293 DBREF 5MCT B 94 293 UNP P04637 P53_HUMAN 94 293 DBREF 5MCT C 0 20 PDB 5MCT 5MCT 0 20 SEQRES 1 A 200 SER SER SER VAL PRO SER GLN LYS THR TYR GLN GLY SER SEQRES 2 A 200 TYR GLY PHE ARG LEU GLY PHE LEU HIS SER GLY THR ALA SEQRES 3 A 200 LYS SER VAL THR CYS THR TYR SER PRO ALA LEU ASN LYS SEQRES 4 A 200 MET PHE CYS GLN LEU ALA LYS THR CYS PRO VAL GLN LEU SEQRES 5 A 200 TRP VAL ASP SER THR PRO PRO PRO GLY THR ARG VAL ARG SEQRES 6 A 200 ALA MET ALA ILE TYR LYS GLN SER GLN HIS MET THR GLU SEQRES 7 A 200 VAL VAL ARG ARG CYS PRO HIS HIS GLU ARG CYS SER ASP SEQRES 8 A 200 SER ASP GLY LEU ALA PRO PRO GLN HIS LEU ILE ARG VAL SEQRES 9 A 200 GLU GLY ASN LEU ARG VAL GLU TYR LEU ASP ASP ARG ASN SEQRES 10 A 200 THR PHE ARG HIS SER VAL VAL VAL PRO TYR GLU PRO PRO SEQRES 11 A 200 GLU VAL GLY SER ASP CYS THR THR ILE HIS TYR ASN TYR SEQRES 12 A 200 MET CYS ASN SER SER CYS MET GLY GLY MET ASN ARG ARG SEQRES 13 A 200 PRO ILE LEU THR ILE ILE THR LEU GLU ASP SER SER GLY SEQRES 14 A 200 ASN LEU LEU GLY ARG ASN SER PHE GLU VAL ARG VAL CYS SEQRES 15 A 200 ALA CYS PRO GLY ARG ASP ARG ARG THR GLU GLU GLU ASN SEQRES 16 A 200 LEU ARG LYS LYS GLY SEQRES 1 B 200 SER SER SER VAL PRO SER GLN LYS THR TYR GLN GLY SER SEQRES 2 B 200 TYR GLY PHE ARG LEU GLY PHE LEU HIS SER GLY THR ALA SEQRES 3 B 200 LYS SER VAL THR CYS THR TYR SER PRO ALA LEU ASN LYS SEQRES 4 B 200 MET PHE CYS GLN LEU ALA LYS THR CYS PRO VAL GLN LEU SEQRES 5 B 200 TRP VAL ASP SER THR PRO PRO PRO GLY THR ARG VAL ARG SEQRES 6 B 200 ALA MET ALA ILE TYR LYS GLN SER GLN HIS MET THR GLU SEQRES 7 B 200 VAL VAL ARG ARG CYS PRO HIS HIS GLU ARG CYS SER ASP SEQRES 8 B 200 SER ASP GLY LEU ALA PRO PRO GLN HIS LEU ILE ARG VAL SEQRES 9 B 200 GLU GLY ASN LEU ARG VAL GLU TYR LEU ASP ASP ARG ASN SEQRES 10 B 200 THR PHE ARG HIS SER VAL VAL VAL PRO TYR GLU PRO PRO SEQRES 11 B 200 GLU VAL GLY SER ASP CYS THR THR ILE HIS TYR ASN TYR SEQRES 12 B 200 MET CYS ASN SER SER CYS MET GLY GLY MET ASN ARG ARG SEQRES 13 B 200 PRO ILE LEU THR ILE ILE THR LEU GLU ASP SER SER GLY SEQRES 14 B 200 ASN LEU LEU GLY ARG ASN SER PHE GLU VAL ARG VAL CYS SEQRES 15 B 200 ALA CYS PRO GLY ARG ASP ARG ARG THR GLU GLU GLU ASN SEQRES 16 B 200 LEU ARG LYS LYS GLY SEQRES 1 C 21 DT DG DG DG DC IGU DT DG DC DC DC DG DG SEQRES 2 C 21 DG DC IGU DT DG DC DC DC HET IGU C 5 33 HET IGU C 15 33 HET ZN A 301 1 HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET FOR A 305 2 HET ZN B 301 1 HET EDO B 302 4 HET EDO B 303 4 HET EDO B 304 4 HET FOR B 305 2 HETNAM IGU 2'-DEOXYISOGUANINE-5'-MONOPHOSPHATE HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETNAM FOR FORMYL GROUP HETSYN EDO ETHYLENE GLYCOL FORMUL 3 IGU 2(C10 H14 N5 O7 P) FORMUL 4 ZN 2(ZN 2+) FORMUL 5 EDO 6(C2 H6 O2) FORMUL 8 FOR 2(C H2 O) FORMUL 14 HOH *612(H2 O) HELIX 1 AA1 CYS A 176 ARG A 181 1 6 HELIX 2 AA2 CYS A 277 GLY A 293 1 17 HELIX 3 AA3 CYS B 176 ARG B 181 1 6 HELIX 4 AA4 CYS B 277 GLY B 293 1 17 SHEET 1 AA1 4 ARG A 110 GLY A 112 0 SHEET 2 AA1 4 CYS A 141 TRP A 146 -1 O GLN A 144 N GLY A 112 SHEET 3 AA1 4 THR A 230 TYR A 236 -1 O THR A 230 N LEU A 145 SHEET 4 AA1 4 ILE A 195 GLU A 198 -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 PHE A 134 N THR A 125 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 ILE A 255 O ASN A 268 SHEET 5 AA2 7 ARG A 156 TYR A 163 -1 N ARG A 156 O GLU A 258 SHEET 6 AA2 7 HIS A 214 PRO A 219 -1 O VAL A 218 N VAL A 157 SHEET 7 AA2 7 GLU A 204 ASP A 207 -1 N LEU A 206 O SER A 215 SHEET 1 AA3 4 ARG B 110 PHE B 113 0 SHEET 2 AA3 4 CYS B 141 TRP B 146 -1 O GLN B 144 N GLY B 112 SHEET 3 AA3 4 THR B 230 TYR B 236 -1 O THR B 230 N LEU B 145 SHEET 4 AA3 4 ILE B 195 GLU B 198 -1 N ARG B 196 O ASN B 235 SHEET 1 AA4 7 CYS B 124 SER B 127 0 SHEET 2 AA4 7 LYS B 132 CYS B 135 -1 O PHE B 134 N THR B 125 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 ILE B 255 O ASN B 268 SHEET 5 AA4 7 ARG B 156 TYR B 163 -1 N ARG B 156 O GLU B 258 SHEET 6 AA4 7 HIS B 214 PRO B 219 -1 O VAL B 218 N VAL B 157 SHEET 7 AA4 7 GLU B 204 ASP B 207 -1 N LEU B 206 O SER B 215 LINK O3' DC C 4 P IGU C 5 1555 1555 1.60 LINK O3' IGU C 5 P DT C 6 1555 1555 1.59 LINK O3' DC C 14 P IGU C 15 1555 1555 1.59 LINK O3' IGU C 15 P DT C 16 1555 1555 1.61 LINK SG CYS A 176 ZN ZN A 301 1555 1555 2.34 LINK ND1 HIS A 179 ZN ZN A 301 1555 1555 1.96 LINK SG CYS A 238 ZN ZN A 301 1555 1555 2.34 LINK SG CYS A 242 ZN ZN A 301 1555 1555 2.37 LINK SG CYS B 176 ZN ZN B 301 1555 1555 2.31 LINK ND1 HIS B 179 ZN ZN B 301 1555 1555 1.97 LINK SG CYS B 238 ZN ZN B 301 1555 1555 2.32 LINK SG CYS B 242 ZN ZN B 301 1555 1555 2.27 CRYST1 137.486 49.460 68.503 90.00 93.63 90.00 C 1 2 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 0.007273 0.000000 0.000462 0.00000 SCALE2 0.000000 0.020218 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014627 0.00000