HEADER ANTITUMOR PROTEIN 11-JUL-22 7YGI TITLE CRYSTAL STRUCTURE OF P53 DBD DOMAIN IN COMPLEX WITH AZURIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELLULAR TUMOR ANTIGEN P53; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PHOSPHOPROTEIN P53,TUMOR SUPPRESSOR P53; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: AZURIN; COMPND 8 CHAIN: C, D; COMPND 9 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA PAO1; SOURCE 10 ORGANISM_TAXID: 208964; SOURCE 11 GENE: AZU, PA4922; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSIENT COMPLEX, TUMOUR SUPPRESSOR, ANTITUMOR PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR W.X.JIANG,J.Q.ZUO,J.J.HU,X.Q.CHEN,L.X.MA,Z.LIU,Q.XING REVDAT 1 08-FEB-23 7YGI 0 JRNL AUTH J.HU,W.JIANG,J.ZUO,D.SHI,X.CHEN,X.YANG,W.ZHANG,L.MA,Z.LIU, JRNL AUTH 2 Q.XING JRNL TITL STRUCTURAL BASIS OF BACTERIAL EFFECTOR PROTEIN AZURIN JRNL TITL 2 TARGETING TUMOR SUPPRESSOR P53 AND INHIBITING ITS JRNL TITL 3 UBIQUITINATION. JRNL REF COMMUN BIOL V. 6 59 2023 JRNL REFN ESSN 2399-3642 JRNL PMID 36650277 JRNL DOI 10.1038/S42003-023-04458-1 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX V 1.20.1-4487 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.88 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 45781 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 2256 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 10.0000 - 5.2609 0.95 2765 141 0.1710 0.2192 REMARK 3 2 5.2609 - 4.1885 0.97 2781 134 0.1482 0.1952 REMARK 3 3 4.1885 - 3.6628 0.95 2689 143 0.1709 0.2084 REMARK 3 4 3.6628 - 3.3296 0.97 2742 141 0.1880 0.2452 REMARK 3 5 3.3296 - 3.0919 0.99 2783 149 0.1865 0.2211 REMARK 3 6 3.0919 - 2.9102 0.99 2823 133 0.1938 0.2615 REMARK 3 7 2.9102 - 2.7649 0.99 2757 159 0.2125 0.2869 REMARK 3 8 2.7649 - 2.6448 1.00 2803 158 0.2122 0.2628 REMARK 3 9 2.6448 - 2.5432 1.00 2801 146 0.2264 0.2741 REMARK 3 10 2.5432 - 2.4556 0.99 2779 153 0.2254 0.2965 REMARK 3 11 2.4556 - 2.3790 0.99 2785 132 0.2395 0.2923 REMARK 3 12 2.3790 - 2.3111 0.99 2797 131 0.2727 0.3670 REMARK 3 13 2.3111 - 2.2503 0.87 2444 125 0.3947 0.4861 REMARK 3 14 2.2503 - 2.1955 0.81 2241 129 0.4173 0.4747 REMARK 3 15 2.1955 - 2.1456 0.98 2763 131 0.3202 0.4090 REMARK 3 16 2.1456 - 2.1000 0.99 2772 151 0.2745 0.3339 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) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.840 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.40 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 : 0.009 5077 REMARK 3 ANGLE : 0.966 6872 REMARK 3 CHIRALITY : 0.056 757 REMARK 3 PLANARITY : 0.007 902 REMARK 3 DIHEDRAL : 3.404 3082 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 92 THROUGH 289) REMARK 3 ORIGIN FOR THE GROUP (A): -31.8582 -25.4284 -0.0822 REMARK 3 T TENSOR REMARK 3 T11: 0.1868 T22: 0.1305 REMARK 3 T33: 0.0805 T12: 0.0003 REMARK 3 T13: 0.0024 T23: 0.0167 REMARK 3 L TENSOR REMARK 3 L11: 0.6646 L22: 1.9008 REMARK 3 L33: 0.5882 L12: -0.2840 REMARK 3 L13: -0.0875 L23: 0.1130 REMARK 3 S TENSOR REMARK 3 S11: -0.0014 S12: 0.0361 S13: 0.0193 REMARK 3 S21: -0.0594 S22: -0.0526 S23: -0.0132 REMARK 3 S31: 0.0219 S32: 0.1053 S33: 0.0431 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 92 THROUGH 289) REMARK 3 ORIGIN FOR THE GROUP (A): -24.7391 -22.7808 -40.9365 REMARK 3 T TENSOR REMARK 3 T11: 0.1939 T22: 0.1070 REMARK 3 T33: 0.0953 T12: -0.0097 REMARK 3 T13: 0.0067 T23: 0.0156 REMARK 3 L TENSOR REMARK 3 L11: 0.8162 L22: 1.4966 REMARK 3 L33: 1.1944 L12: -0.4178 REMARK 3 L13: -0.4122 L23: 0.6411 REMARK 3 S TENSOR REMARK 3 S11: 0.0384 S12: -0.0033 S13: -0.0016 REMARK 3 S21: -0.0423 S22: -0.0343 S23: 0.0123 REMARK 3 S31: -0.0610 S32: 0.0004 S33: -0.0052 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN 'C' AND RESID 3 THROUGH 125) REMARK 3 ORIGIN FOR THE GROUP (A): -57.4904 -20.4116 -14.8108 REMARK 3 T TENSOR REMARK 3 T11: 0.2085 T22: 0.3729 REMARK 3 T33: 0.3705 T12: -0.0968 REMARK 3 T13: -0.0065 T23: -0.0388 REMARK 3 L TENSOR REMARK 3 L11: 1.4732 L22: 1.0900 REMARK 3 L33: 0.9631 L12: -0.3714 REMARK 3 L13: 0.2129 L23: -0.5328 REMARK 3 S TENSOR REMARK 3 S11: -0.0993 S12: -0.0207 S13: -0.2966 REMARK 3 S21: -0.0662 S22: 0.0317 S23: 0.4376 REMARK 3 S31: 0.2390 S32: -0.4761 S33: 0.0348 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN 'D' AND RESID 3 THROUGH 125) REMARK 3 ORIGIN FOR THE GROUP (A): -63.4246 4.0196 -27.3107 REMARK 3 T TENSOR REMARK 3 T11: 0.1760 T22: 0.5185 REMARK 3 T33: 0.6006 T12: -0.0171 REMARK 3 T13: -0.0518 T23: 0.0786 REMARK 3 L TENSOR REMARK 3 L11: 1.3872 L22: 0.5551 REMARK 3 L33: 0.3395 L12: 0.8547 REMARK 3 L13: 0.1105 L23: 0.0962 REMARK 3 S TENSOR REMARK 3 S11: 0.0703 S12: 0.1518 S13: 0.1120 REMARK 3 S21: -0.1893 S22: 0.1058 S23: 0.7148 REMARK 3 S31: -0.0733 S32: -0.4031 S33: -0.0279 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 2 REMARK 3 NCS GROUP : ens_1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "A" and (resid 93 through 105 or REMARK 3 resid 107 through 289)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "B" and (resid 93 through 105 or REMARK 3 resid 107 through 224 or (resid 225 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB )) or resid 226 through 289)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS GROUP : ens_2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : chain "C" REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "D" and (resid 4 through 21 or REMARK 3 (resid 22 and (name N or name CA or name REMARK 3 C or name O or name CB or name CG1)) or REMARK 3 resid 23 through 125)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7YGI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-JUL-22. REMARK 100 THE DEPOSITION ID IS D_1300030479. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUN-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL02U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.987 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : AGILENT ATLAS CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : ADDREF REMARK 200 DATA SCALING SOFTWARE : ADDREF REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46000 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 19.880 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL 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: AMPLE REMARK 200 STARTING MODEL: 3KMD, 1E67 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05M NA2HPO4+19.5% PEG3350, BATCH REMARK 280 MODE, TEMPERATURE 298K 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 72.41950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.37500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 72.41950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.37500 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 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 APPLY THE FOLLOWING TO CHAINS: A, B, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH D 360 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 386 LIES ON A SPECIAL POSITION. 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 SER B 106 CB OG REMARK 470 SER D 25 OG 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 B 569 O HOH B 571 1.73 REMARK 500 O HOH B 492 O HOH B 551 1.80 REMARK 500 O HOH A 484 O HOH A 600 1.85 REMARK 500 NH2 ARG A 202 O HOH A 401 1.86 REMARK 500 O HOH B 431 O HOH B 452 1.88 REMARK 500 O HOH A 608 O HOH A 611 1.88 REMARK 500 O HOH D 380 O HOH D 387 1.89 REMARK 500 O HOH B 582 O HOH B 610 1.90 REMARK 500 N CYS D 3 O HOH D 301 1.90 REMARK 500 O HOH C 274 O HOH C 285 1.91 REMARK 500 O HOH B 613 O HOH B 625 1.92 REMARK 500 O HOH C 219 O HOH C 282 1.92 REMARK 500 O LEU B 289 O HOH B 401 1.94 REMARK 500 O GLU A 285 O HOH A 402 1.95 REMARK 500 OG SER A 240 O HOH A 403 1.96 REMARK 500 NZ LYS D 27 O HOH D 302 1.97 REMARK 500 O HOH D 343 O HOH D 369 1.98 REMARK 500 O HOH B 572 O HOH B 596 1.98 REMARK 500 O HOH A 516 O HOH A 619 2.01 REMARK 500 O HOH D 365 O HOH D 385 2.01 REMARK 500 O HOH A 486 O HOH A 638 2.02 REMARK 500 OE1 GLN A 167 O HOH A 404 2.03 REMARK 500 OG SER B 183 O HOH B 402 2.03 REMARK 500 O HOH D 356 O HOH D 395 2.03 REMARK 500 O VAL B 225 O HOH B 403 2.04 REMARK 500 O HOH D 373 O HOH D 398 2.04 REMARK 500 O HOH A 502 O HOH A 616 2.04 REMARK 500 O LEU B 201 O HOH B 404 2.06 REMARK 500 O HOH A 576 O HOH A 624 2.06 REMARK 500 OE2 GLU A 221 O HOH A 405 2.06 REMARK 500 O HOH B 444 O HOH B 523 2.07 REMARK 500 O HOH B 534 O HOH B 562 2.07 REMARK 500 O HOH A 551 O HOH A 584 2.09 REMARK 500 O HOH A 452 O HOH A 566 2.10 REMARK 500 O HOH D 374 O HOH D 379 2.10 REMARK 500 NE2 GLN B 165 O HOH B 405 2.11 REMARK 500 O HOH D 315 O HOH D 380 2.13 REMARK 500 NZ LYS A 120 O HOH A 406 2.14 REMARK 500 NH1 ARG B 280 O HOH B 406 2.14 REMARK 500 O LEU D 125 O HOH D 303 2.14 REMARK 500 O SER D 100 O HOH D 304 2.15 REMARK 500 O HOH A 528 O HOH A 638 2.16 REMARK 500 N SER C 78 O HOH C 201 2.16 REMARK 500 O HOH C 257 O HOH C 275 2.17 REMARK 500 O HOH D 377 O HOH D 399 2.18 REMARK 500 O HOH A 526 O HOH A 644 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 B 491 O HOH B 525 4454 2.06 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 SER A 183 58.99 -96.21 REMARK 500 ASN A 247 43.83 37.59 REMARK 500 SER B 183 38.26 -94.74 REMARK 500 ALA C 19 111.30 -162.10 REMARK 500 MET C 121 79.16 -115.25 REMARK 500 ASN D 10 -164.83 -105.97 REMARK 500 MET D 44 57.53 -152.87 REMARK 500 SER D 89 135.27 -33.97 REMARK 500 LYS D 101 46.50 -94.61 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 A 663 DISTANCE = 6.08 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 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 176 SG REMARK 620 2 HIS A 179 ND1 106.8 REMARK 620 3 CYS A 238 SG 109.4 91.0 REMARK 620 4 CYS A 242 SG 114.7 106.9 124.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 176 SG REMARK 620 2 HIS B 179 ND1 113.1 REMARK 620 3 CYS B 238 SG 113.3 97.5 REMARK 620 4 CYS B 242 SG 115.4 101.6 113.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 301 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 186 OD2 REMARK 620 2 VAL B 197 O 109.4 REMARK 620 3 TYR B 205 OH 122.7 100.3 REMARK 620 N 1 2 DBREF 7YGI A 92 289 UNP P04637 P53_HUMAN 92 289 DBREF 7YGI B 92 289 UNP P04637 P53_HUMAN 92 289 DBREF 7YGI C 3 125 UNP P00282 AZUR_PSEAE 23 145 DBREF 7YGI D 3 125 UNP P00282 AZUR_PSEAE 23 145 SEQRES 1 A 198 PRO LEU SER SER SER VAL PRO SER GLN LYS THR TYR GLN SEQRES 2 A 198 GLY SER TYR GLY PHE ARG LEU GLY PHE LEU HIS SER GLY SEQRES 3 A 198 THR ALA LYS SER VAL THR CYS THR TYR SER PRO ALA LEU SEQRES 4 A 198 ASN LYS MET PHE CYS GLN LEU ALA LYS THR CYS PRO VAL SEQRES 5 A 198 GLN LEU TRP VAL ASP SER THR PRO PRO PRO GLY THR ARG SEQRES 6 A 198 VAL ARG ALA MET ALA ILE TYR LYS GLN SER GLN HIS MET SEQRES 7 A 198 THR GLU VAL VAL ARG ARG CYS PRO HIS HIS GLU ARG CYS SEQRES 8 A 198 SER ASP SER ASP GLY LEU ALA PRO PRO GLN HIS LEU ILE SEQRES 9 A 198 ARG VAL GLU GLY ASN LEU ARG VAL GLU TYR LEU ASP ASP SEQRES 10 A 198 ARG ASN THR PHE ARG HIS SER VAL VAL VAL PRO TYR GLU SEQRES 11 A 198 PRO PRO GLU VAL GLY SER ASP CYS THR THR ILE HIS TYR SEQRES 12 A 198 ASN TYR MET CYS ASN SER SER CYS MET GLY GLY MET ASN SEQRES 13 A 198 ARG ARG PRO ILE LEU THR ILE ILE THR LEU GLU ASP SER SEQRES 14 A 198 SER GLY ASN LEU LEU GLY ARG ASN SER PHE GLU VAL ARG SEQRES 15 A 198 VAL CYS ALA CYS PRO GLY ARG ASP ARG ARG THR GLU GLU SEQRES 16 A 198 GLU ASN LEU SEQRES 1 B 198 PRO LEU SER SER SER VAL PRO SER GLN LYS THR TYR GLN SEQRES 2 B 198 GLY SER TYR GLY PHE ARG LEU GLY PHE LEU HIS SER GLY SEQRES 3 B 198 THR ALA LYS SER VAL THR CYS THR TYR SER PRO ALA LEU SEQRES 4 B 198 ASN LYS MET PHE CYS GLN LEU ALA LYS THR CYS PRO VAL SEQRES 5 B 198 GLN LEU TRP VAL ASP SER THR PRO PRO PRO GLY THR ARG SEQRES 6 B 198 VAL ARG ALA MET ALA ILE TYR LYS GLN SER GLN HIS MET SEQRES 7 B 198 THR GLU VAL VAL ARG ARG CYS PRO HIS HIS GLU ARG CYS SEQRES 8 B 198 SER ASP SER ASP GLY LEU ALA PRO PRO GLN HIS LEU ILE SEQRES 9 B 198 ARG VAL GLU GLY ASN LEU ARG VAL GLU TYR LEU ASP ASP SEQRES 10 B 198 ARG ASN THR PHE ARG HIS SER VAL VAL VAL PRO TYR GLU SEQRES 11 B 198 PRO PRO GLU VAL GLY SER ASP CYS THR THR ILE HIS TYR SEQRES 12 B 198 ASN TYR MET CYS ASN SER SER CYS MET GLY GLY MET ASN SEQRES 13 B 198 ARG ARG PRO ILE LEU THR ILE ILE THR LEU GLU ASP SER SEQRES 14 B 198 SER GLY ASN LEU LEU GLY ARG ASN SER PHE GLU VAL ARG SEQRES 15 B 198 VAL CYS ALA CYS PRO GLY ARG ASP ARG ARG THR GLU GLU SEQRES 16 B 198 GLU ASN LEU SEQRES 1 C 123 CYS SER VAL ASP ILE GLN GLY ASN ASP GLN MET GLN PHE SEQRES 2 C 123 ASN THR ASN ALA ILE THR VAL ASP LYS SER CYS LYS GLN SEQRES 3 C 123 PHE THR VAL ASN LEU SER HIS PRO GLY ASN LEU PRO LYS SEQRES 4 C 123 ASN VAL MET GLY HIS ASN TRP VAL LEU SER THR ALA ALA SEQRES 5 C 123 ASP MET GLN GLY VAL VAL THR ASP GLY MET ALA SER GLY SEQRES 6 C 123 LEU ASP LYS ASP TYR LEU LYS PRO ASP ASP SER ARG VAL SEQRES 7 C 123 ILE ALA HIS THR LYS LEU ILE GLY SER GLY GLU LYS ASP SEQRES 8 C 123 SER VAL THR PHE ASP VAL SER LYS LEU LYS GLU GLY GLU SEQRES 9 C 123 GLN TYR MET PHE PHE CYS THR PHE PRO GLY HIS SER ALA SEQRES 10 C 123 LEU MET LYS GLY THR LEU SEQRES 1 D 123 CYS SER VAL ASP ILE GLN GLY ASN ASP GLN MET GLN PHE SEQRES 2 D 123 ASN THR ASN ALA ILE THR VAL ASP LYS SER CYS LYS GLN SEQRES 3 D 123 PHE THR VAL ASN LEU SER HIS PRO GLY ASN LEU PRO LYS SEQRES 4 D 123 ASN VAL MET GLY HIS ASN TRP VAL LEU SER THR ALA ALA SEQRES 5 D 123 ASP MET GLN GLY VAL VAL THR ASP GLY MET ALA SER GLY SEQRES 6 D 123 LEU ASP LYS ASP TYR LEU LYS PRO ASP ASP SER ARG VAL SEQRES 7 D 123 ILE ALA HIS THR LYS LEU ILE GLY SER GLY GLU LYS ASP SEQRES 8 D 123 SER VAL THR PHE ASP VAL SER LYS LEU LYS GLU GLY GLU SEQRES 9 D 123 GLN TYR MET PHE PHE CYS THR PHE PRO GLY HIS SER ALA SEQRES 10 D 123 LEU MET LYS GLY THR LEU HET NA A 301 1 HET ZN A 302 1 HET NA B 301 1 HET ZN B 302 1 HET K B 303 1 HET PO4 D 201 5 HET K D 202 1 HETNAM NA SODIUM ION HETNAM ZN ZINC ION HETNAM K POTASSIUM ION HETNAM PO4 PHOSPHATE ION FORMUL 5 NA 2(NA 1+) FORMUL 6 ZN 2(ZN 2+) FORMUL 9 K 2(K 1+) FORMUL 10 PO4 O4 P 3- FORMUL 12 HOH *710(H2 O) HELIX 1 AA1 GLN A 165 MET A 169 5 5 HELIX 2 AA2 CYS A 176 ARG A 181 1 6 HELIX 3 AA3 CYS A 277 ASN A 288 1 12 HELIX 4 AA4 GLN B 165 MET B 169 5 5 HELIX 5 AA5 CYS B 176 ARG B 181 1 6 HELIX 6 AA6 CYS B 277 GLU B 287 1 11 HELIX 7 AA7 PRO C 40 GLY C 45 1 6 HELIX 8 AA8 ASP C 55 ALA C 65 1 11 HELIX 9 AA9 SER C 66 ASP C 71 5 6 HELIX 10 AB1 SER C 100 LEU C 102 5 3 HELIX 11 AB2 PRO D 40 GLY D 45 1 6 HELIX 12 AB3 ALA D 53 ALA D 65 1 13 HELIX 13 AB4 GLY D 67 ASP D 71 5 5 HELIX 14 AB5 SER D 100 LEU D 102 5 3 HELIX 15 AB6 GLY D 116 LEU D 120 5 5 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 THR A 230 N LEU A 145 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 LEU A 265 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 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 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 VAL B 197 -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 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 LEU B 265 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 216 N ALA B 159 SHEET 7 AA4 7 GLU B 204 ASP B 207 -1 N GLU B 204 O VAL B 217 SHEET 1 AA5 3 SER C 4 GLN C 8 0 SHEET 2 AA5 3 GLN C 28 SER C 34 1 O ASN C 32 N ILE C 7 SHEET 3 AA5 3 LYS C 92 ASP C 98 -1 O ASP C 93 N LEU C 33 SHEET 1 AA6 4 ALA C 82 HIS C 83 0 SHEET 2 AA6 4 VAL C 49 THR C 52 -1 N LEU C 50 O ALA C 82 SHEET 3 AA6 4 TYR C 108 PHE C 111 -1 O MET C 109 N SER C 51 SHEET 4 AA6 4 LYS C 122 LEU C 125 -1 O GLY C 123 N PHE C 110 SHEET 1 AA7 3 SER D 4 GLN D 8 0 SHEET 2 AA7 3 GLN D 28 SER D 34 1 O ASN D 32 N ILE D 7 SHEET 3 AA7 3 LYS D 92 ASP D 98 -1 O PHE D 97 N PHE D 29 SHEET 1 AA8 4 ALA D 82 HIS D 83 0 SHEET 2 AA8 4 VAL D 49 THR D 52 -1 N LEU D 50 O ALA D 82 SHEET 3 AA8 4 TYR D 108 PHE D 111 -1 O MET D 109 N SER D 51 SHEET 4 AA8 4 LYS D 122 THR D 124 -1 O GLY D 123 N PHE D 110 SSBOND 1 CYS C 3 CYS C 26 1555 1555 2.03 SSBOND 2 CYS D 3 CYS D 26 1555 1555 1.97 LINK OE1 GLN A 165 NA NA A 301 1555 1555 2.58 LINK SG CYS A 176 ZN ZN A 302 1555 1555 2.33 LINK ND1 HIS A 179 ZN ZN A 302 1555 1555 2.01 LINK SG CYS A 238 ZN ZN A 302 1555 1555 2.60 LINK SG CYS A 242 ZN ZN A 302 1555 1555 2.08 LINK SG CYS B 176 ZN ZN B 302 1555 1555 2.38 LINK ND1 HIS B 179 ZN ZN B 302 1555 1555 2.14 LINK OD2 ASP B 186 NA NA B 301 1555 1555 2.80 LINK O VAL B 197 NA NA B 301 1555 1555 2.91 LINK OH TYR B 205 NA NA B 301 1555 1555 2.45 LINK SG CYS B 238 ZN ZN B 302 1555 1555 2.30 LINK SG CYS B 242 ZN ZN B 302 1555 1555 2.25 LINK O PRO D 36 K K D 202 1555 1555 3.38 CRYST1 144.839 68.750 83.847 90.00 99.69 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 0.006904 0.000000 0.001180 0.00000 SCALE2 0.000000 0.014545 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012099 0.00000 MTRIX1 1 0.987331 0.026637 -0.156422 7.36842 1 MTRIX2 1 -0.020692 0.999005 0.039512 1.96169 1 MTRIX3 1 0.157319 -0.035775 0.986900 -36.72069 1 MTRIX1 2 0.648750 0.660224 0.378454 -7.07333 1 MTRIX2 2 0.760474 -0.543942 -0.354691 31.36202 1 MTRIX3 2 -0.028319 0.517911 -0.854966 -31.04994 1