HEADER APOPTOSIS, TRANSCRIPTION 19-JUN-14 4QO1 TITLE P53 DNA BINDING DOMAIN IN COMPLEX WITH NB139 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NB139 NANOBODY AGAINST THE DNA-BINDING DOMAIN OF P53; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: CELLULAR TUMOR ANTIGEN P53; COMPND 7 CHAIN: B; COMPND 8 FRAGMENT: P53DBD, UNP RESIDUES 92-312; COMPND 9 SYNONYM: ANTIGEN NY-CO-13, PHOSPHOPROTEIN P53, TUMOR SUPPRESSOR P53; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LAMA GLAMA; SOURCE 3 ORGANISM_COMMON: LLAMA; SOURCE 4 ORGANISM_TAXID: 9844; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 GENE: TP53, P53; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS IMMUNOGLOBULIN FOLD, DNA BINDING, APOPTOSIS, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR S.DE GIETER,J.BETHUYNE,J.GETTEMANS,A.GARCIA-PINO,R.LORIS REVDAT 3 20-SEP-23 4QO1 1 REMARK SEQADV LINK REVDAT 2 26-NOV-14 4QO1 1 JRNL REVDAT 1 29-OCT-14 4QO1 0 JRNL AUTH J.BETHUYNE,S.DE GIETER,O.ZWAENEPOEL,A.GARCIA-PINO,K.DURINCK, JRNL AUTH 2 A.VERHELLE,G.HASSANZADEH-GHASSABEH,F.SPELEMAN,R.LORIS, JRNL AUTH 3 J.GETTEMANS JRNL TITL A NANOBODY MODULATES THE P53 TRANSCRIPTIONAL PROGRAM WITHOUT JRNL TITL 2 PERTURBING ITS FUNCTIONAL ARCHITECTURE. JRNL REF NUCLEIC ACIDS RES. V. 42 12928 2014 JRNL REFN ISSN 0305-1048 JRNL PMID 25324313 JRNL DOI 10.1093/NAR/GKU962 REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.4_1496) 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) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.82 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 27044 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1353 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 42.8336 - 4.1432 1.00 2753 145 0.1377 0.1632 REMARK 3 2 4.1432 - 3.2890 1.00 2617 138 0.1322 0.1714 REMARK 3 3 3.2890 - 2.8733 1.00 2584 136 0.1572 0.1911 REMARK 3 4 2.8733 - 2.6107 1.00 2593 137 0.1700 0.2353 REMARK 3 5 2.6107 - 2.4236 1.00 2565 135 0.1765 0.2010 REMARK 3 6 2.4236 - 2.2807 1.00 2549 134 0.1786 0.2425 REMARK 3 7 2.2807 - 2.1665 1.00 2565 135 0.1818 0.2669 REMARK 3 8 2.1665 - 2.0722 1.00 2525 133 0.2007 0.2456 REMARK 3 9 2.0722 - 1.9924 1.00 2520 132 0.2383 0.2772 REMARK 3 10 1.9924 - 1.9236 0.95 2420 128 0.2969 0.3347 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.920 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.80 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 : 0.007 2558 REMARK 3 ANGLE : 0.989 3479 REMARK 3 CHIRALITY : 0.041 374 REMARK 3 PLANARITY : 0.005 460 REMARK 3 DIHEDRAL : 11.928 917 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 18 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.7600 36.1468 -6.0710 REMARK 3 T TENSOR REMARK 3 T11: 0.4026 T22: 0.3379 REMARK 3 T33: 0.1744 T12: -0.0603 REMARK 3 T13: 0.0488 T23: 0.0061 REMARK 3 L TENSOR REMARK 3 L11: 2.7183 L22: 7.5617 REMARK 3 L33: 3.9261 L12: -0.6816 REMARK 3 L13: -0.0740 L23: 1.0388 REMARK 3 S TENSOR REMARK 3 S11: 0.0859 S12: 0.0508 S13: 0.0071 REMARK 3 S21: -0.6212 S22: 0.0272 S23: -0.1704 REMARK 3 S31: 0.1717 S32: -0.4777 S33: -0.0529 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 19 THROUGH 25 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.9747 40.4198 -2.6278 REMARK 3 T TENSOR REMARK 3 T11: 0.3229 T22: 0.2541 REMARK 3 T33: 0.1829 T12: 0.0035 REMARK 3 T13: 0.0325 T23: -0.0073 REMARK 3 L TENSOR REMARK 3 L11: 4.7067 L22: 2.7612 REMARK 3 L33: 5.6271 L12: -1.4554 REMARK 3 L13: -0.3004 L23: 3.6928 REMARK 3 S TENSOR REMARK 3 S11: 0.4041 S12: -0.0616 S13: 0.1148 REMARK 3 S21: 0.4370 S22: -0.3783 S23: 0.1233 REMARK 3 S31: -0.0216 S32: -0.2281 S33: 0.0334 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 26 THROUGH 32 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.5418 53.6051 4.5851 REMARK 3 T TENSOR REMARK 3 T11: 0.5819 T22: 0.3382 REMARK 3 T33: 0.3852 T12: -0.0360 REMARK 3 T13: 0.0994 T23: 0.0076 REMARK 3 L TENSOR REMARK 3 L11: 8.0403 L22: 9.4509 REMARK 3 L33: 2.1549 L12: -2.0224 REMARK 3 L13: 3.8480 L23: -1.1152 REMARK 3 S TENSOR REMARK 3 S11: -0.0702 S12: 0.7073 S13: 0.4162 REMARK 3 S21: -1.9278 S22: -0.1690 S23: -0.4471 REMARK 3 S31: -0.6002 S32: 0.1242 S33: 0.2492 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 33 THROUGH 40 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.2121 39.8444 5.2304 REMARK 3 T TENSOR REMARK 3 T11: 0.3809 T22: 0.3272 REMARK 3 T33: 0.1938 T12: -0.0996 REMARK 3 T13: -0.0077 T23: -0.0458 REMARK 3 L TENSOR REMARK 3 L11: 3.4760 L22: 5.3713 REMARK 3 L33: 2.1626 L12: 1.7931 REMARK 3 L13: 1.7849 L23: 2.0261 REMARK 3 S TENSOR REMARK 3 S11: 0.1378 S12: -0.0289 S13: -0.0230 REMARK 3 S21: -0.4778 S22: -0.5407 S23: 0.4830 REMARK 3 S31: 0.4739 S32: -0.6116 S33: 0.3261 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 41 THROUGH 52 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.9976 33.3002 6.0179 REMARK 3 T TENSOR REMARK 3 T11: 0.6254 T22: 0.5359 REMARK 3 T33: 0.2711 T12: -0.2680 REMARK 3 T13: 0.0001 T23: -0.0249 REMARK 3 L TENSOR REMARK 3 L11: 6.5077 L22: 3.2878 REMARK 3 L33: 2.2628 L12: 1.5205 REMARK 3 L13: 2.5594 L23: 2.4873 REMARK 3 S TENSOR REMARK 3 S11: 0.3154 S12: 0.1948 S13: -0.5079 REMARK 3 S21: 0.3689 S22: -0.2681 S23: 0.2681 REMARK 3 S31: 1.1092 S32: -1.0234 S33: -0.0349 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 53 THROUGH 74 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.1378 36.4767 8.8924 REMARK 3 T TENSOR REMARK 3 T11: 0.4922 T22: 0.2368 REMARK 3 T33: 0.2237 T12: -0.0036 REMARK 3 T13: -0.0469 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 3.8030 L22: 6.2695 REMARK 3 L33: 3.3236 L12: 0.1280 REMARK 3 L13: 1.7448 L23: 3.0837 REMARK 3 S TENSOR REMARK 3 S11: 0.2702 S12: -0.2408 S13: -0.3128 REMARK 3 S21: 0.3575 S22: 0.0544 S23: -0.3286 REMARK 3 S31: 1.1890 S32: 0.0848 S33: -0.2419 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 75 THROUGH 84 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.7873 42.2020 0.7875 REMARK 3 T TENSOR REMARK 3 T11: 0.3807 T22: 0.3401 REMARK 3 T33: 0.2430 T12: -0.0014 REMARK 3 T13: 0.0579 T23: -0.0195 REMARK 3 L TENSOR REMARK 3 L11: 7.9030 L22: 3.8811 REMARK 3 L33: 9.1896 L12: 1.5704 REMARK 3 L13: 1.8776 L23: 2.3262 REMARK 3 S TENSOR REMARK 3 S11: 0.2831 S12: -0.1172 S13: 0.3913 REMARK 3 S21: 0.0046 S22: -0.1710 S23: -0.1859 REMARK 3 S31: -0.1422 S32: 0.7288 S33: -0.2294 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 85 THROUGH 99 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.4816 30.6313 -0.7400 REMARK 3 T TENSOR REMARK 3 T11: 0.5633 T22: 0.3426 REMARK 3 T33: 0.2849 T12: -0.1103 REMARK 3 T13: 0.0362 T23: -0.0490 REMARK 3 L TENSOR REMARK 3 L11: 2.9931 L22: 9.1686 REMARK 3 L33: 4.4678 L12: -0.7873 REMARK 3 L13: -0.1854 L23: 4.8069 REMARK 3 S TENSOR REMARK 3 S11: 0.0573 S12: 0.1666 S13: -0.3958 REMARK 3 S21: 0.0509 S22: -0.0099 S23: -0.2697 REMARK 3 S31: 0.9200 S32: -0.3721 S33: -0.0441 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 100 THROUGH 117 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.4010 43.8351 10.7055 REMARK 3 T TENSOR REMARK 3 T11: 0.2877 T22: 0.4264 REMARK 3 T33: 0.2268 T12: -0.1071 REMARK 3 T13: 0.0239 T23: -0.0453 REMARK 3 L TENSOR REMARK 3 L11: 3.1313 L22: 2.6357 REMARK 3 L33: 5.9521 L12: -0.1141 REMARK 3 L13: 1.0496 L23: 0.1557 REMARK 3 S TENSOR REMARK 3 S11: 0.2674 S12: -0.6123 S13: 0.2921 REMARK 3 S21: 0.1983 S22: -0.4053 S23: 0.2161 REMARK 3 S31: 0.5858 S32: -1.4527 S33: 0.0934 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 118 THROUGH 129 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.5349 26.1808 -11.5123 REMARK 3 T TENSOR REMARK 3 T11: 0.6962 T22: 0.4331 REMARK 3 T33: 0.3488 T12: -0.0999 REMARK 3 T13: 0.0067 T23: -0.0989 REMARK 3 L TENSOR REMARK 3 L11: 5.3362 L22: 7.1913 REMARK 3 L33: 6.6977 L12: -0.8568 REMARK 3 L13: -0.1888 L23: 3.7484 REMARK 3 S TENSOR REMARK 3 S11: -0.2669 S12: -0.0978 S13: -0.3565 REMARK 3 S21: -0.1943 S22: -0.5754 S23: 0.8357 REMARK 3 S31: 0.3341 S32: -0.8469 S33: 0.7697 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 92 THROUGH 112 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.9295 56.0999 14.7387 REMARK 3 T TENSOR REMARK 3 T11: 0.1732 T22: 0.1726 REMARK 3 T33: 0.2091 T12: -0.0059 REMARK 3 T13: -0.0308 T23: 0.0338 REMARK 3 L TENSOR REMARK 3 L11: 4.6557 L22: 2.0948 REMARK 3 L33: 4.8878 L12: 0.0761 REMARK 3 L13: -0.3214 L23: 0.7219 REMARK 3 S TENSOR REMARK 3 S11: 0.1244 S12: 0.2023 S13: -0.0150 REMARK 3 S21: -0.3308 S22: -0.0292 S23: 0.1759 REMARK 3 S31: 0.0915 S32: -0.0998 S33: -0.0964 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 113 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.5139 63.1835 27.9850 REMARK 3 T TENSOR REMARK 3 T11: 0.2014 T22: 0.1788 REMARK 3 T33: 0.1864 T12: 0.0091 REMARK 3 T13: 0.0178 T23: -0.0089 REMARK 3 L TENSOR REMARK 3 L11: 0.3041 L22: 1.9658 REMARK 3 L33: 0.7258 L12: 0.6949 REMARK 3 L13: -0.0685 L23: 0.0441 REMARK 3 S TENSOR REMARK 3 S11: 0.0182 S12: -0.0520 S13: 0.0586 REMARK 3 S21: 0.1531 S22: -0.0104 S23: 0.0541 REMARK 3 S31: -0.0507 S32: -0.0043 S33: -0.0148 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 156 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.4383 51.3252 15.8010 REMARK 3 T TENSOR REMARK 3 T11: 0.2001 T22: 0.1345 REMARK 3 T33: 0.1804 T12: 0.0075 REMARK 3 T13: -0.0045 T23: -0.0138 REMARK 3 L TENSOR REMARK 3 L11: 2.8082 L22: 0.3475 REMARK 3 L33: 2.8698 L12: 0.5402 REMARK 3 L13: -1.3132 L23: -0.2141 REMARK 3 S TENSOR REMARK 3 S11: -0.0082 S12: 0.3468 S13: -0.0300 REMARK 3 S21: -0.0916 S22: -0.0260 S23: -0.0421 REMARK 3 S31: -0.0590 S32: 0.0004 S33: 0.0224 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 177 THROUGH 194 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.0937 43.6735 29.0357 REMARK 3 T TENSOR REMARK 3 T11: 0.2378 T22: 0.2228 REMARK 3 T33: 0.3039 T12: 0.0480 REMARK 3 T13: -0.0003 T23: 0.0095 REMARK 3 L TENSOR REMARK 3 L11: 5.0017 L22: 1.7184 REMARK 3 L33: 3.9914 L12: 1.8368 REMARK 3 L13: -1.6864 L23: -0.8888 REMARK 3 S TENSOR REMARK 3 S11: 0.0836 S12: -0.4886 S13: -0.5931 REMARK 3 S21: 0.1317 S22: -0.1410 S23: -0.3097 REMARK 3 S31: 0.3535 S32: 0.6230 S33: 0.1583 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 195 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.7560 44.3771 24.7677 REMARK 3 T TENSOR REMARK 3 T11: 0.1062 T22: 0.1036 REMARK 3 T33: 0.1502 T12: 0.0118 REMARK 3 T13: -0.0000 T23: 0.0100 REMARK 3 L TENSOR REMARK 3 L11: 2.5763 L22: 3.7493 REMARK 3 L33: 5.5805 L12: 0.8496 REMARK 3 L13: -0.2367 L23: -0.0422 REMARK 3 S TENSOR REMARK 3 S11: 0.0684 S12: 0.0938 S13: -0.1474 REMARK 3 S21: -0.0695 S22: 0.0456 S23: -0.0805 REMARK 3 S31: 0.2626 S32: -0.0336 S33: -0.0932 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 214 THROUGH 229 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.3842 54.9316 30.5442 REMARK 3 T TENSOR REMARK 3 T11: 0.2473 T22: 0.2022 REMARK 3 T33: 0.2383 T12: 0.0035 REMARK 3 T13: 0.0397 T23: -0.0317 REMARK 3 L TENSOR REMARK 3 L11: 5.1454 L22: 6.3963 REMARK 3 L33: 2.5290 L12: -2.8731 REMARK 3 L13: -1.3155 L23: 0.7441 REMARK 3 S TENSOR REMARK 3 S11: -0.1339 S12: -0.2901 S13: 0.3008 REMARK 3 S21: 0.8808 S22: 0.0830 S23: 0.4510 REMARK 3 S31: -0.0740 S32: -0.2388 S33: 0.0296 REMARK 3 TLS GROUP : 17 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 230 THROUGH 277 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.8640 55.3045 21.7852 REMARK 3 T TENSOR REMARK 3 T11: 0.1687 T22: 0.1440 REMARK 3 T33: 0.1727 T12: 0.0001 REMARK 3 T13: 0.0193 T23: -0.0086 REMARK 3 L TENSOR REMARK 3 L11: 1.2503 L22: 1.0164 REMARK 3 L33: 1.5301 L12: 0.2240 REMARK 3 L13: 0.6627 L23: 0.0867 REMARK 3 S TENSOR REMARK 3 S11: -0.0179 S12: -0.0031 S13: 0.1061 REMARK 3 S21: 0.0339 S22: -0.0265 S23: -0.0603 REMARK 3 S31: -0.0060 S32: 0.0641 S33: 0.0431 REMARK 3 TLS GROUP : 18 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 278 THROUGH 290 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.4327 72.6992 22.2484 REMARK 3 T TENSOR REMARK 3 T11: 0.2159 T22: 0.2195 REMARK 3 T33: 0.2831 T12: -0.0443 REMARK 3 T13: 0.0515 T23: -0.0248 REMARK 3 L TENSOR REMARK 3 L11: 6.9307 L22: 7.7921 REMARK 3 L33: 5.1947 L12: -3.6431 REMARK 3 L13: 1.7933 L23: -2.9524 REMARK 3 S TENSOR REMARK 3 S11: -0.1064 S12: 0.4033 S13: 0.4856 REMARK 3 S21: -0.2918 S22: -0.0566 S23: -0.6607 REMARK 3 S31: -0.0989 S32: 0.4440 S33: 0.2807 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 4QO1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1000086296. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-SEP-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : CHANNEL CUT CRYOGENICALLY COOLED REMARK 200 MONOCHROMATOR CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27046 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 200 RESOLUTION RANGE LOW (A) : 42.820 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.10330 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1MVF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS OF THE COMPLEX WERE OBTAINED REMARK 280 AT 293K USING THE HANGING-DROP VAPOUR DIFFUSION METHOD AFTER REMARK 280 MIXING 1:L PROTEIN SOLUTION WITH 1:L RESERVOIR SOLUTION REMARK 280 EQUILIBRATED AGAINST 125 UL 0.2 M POTASSIUM FORMATE 20% W/V PEG REMARK 280 3350 RESERVOIR SOLUTION, PH 6.5, VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 23.18000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.98000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.14000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.98000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.18000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.14000 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: DIMERIC 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 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 ALA A 1 REMARK 465 GLN A 2 REMARK 465 GLY A 130 REMARK 465 GLY A 131 REMARK 465 GLY A 132 REMARK 465 LYS A 133 REMARK 465 PRO A 134 REMARK 465 ILE A 135 REMARK 465 PRO A 136 REMARK 465 ASN A 137 REMARK 465 PRO A 138 REMARK 465 LEU A 139 REMARK 465 LEU A 140 REMARK 465 GLY A 141 REMARK 465 LEU A 142 REMARK 465 ASP A 143 REMARK 465 SER A 144 REMARK 465 THR A 145 REMARK 465 ARG A 146 REMARK 465 THR A 147 REMARK 465 GLY A 148 REMARK 465 HIS A 149 REMARK 465 HIS A 150 REMARK 465 HIS A 151 REMARK 465 HIS A 152 REMARK 465 HIS A 153 REMARK 465 HIS A 154 REMARK 465 LYS B 291 REMARK 465 LYS B 292 REMARK 465 GLY B 293 REMARK 465 GLU B 294 REMARK 465 PRO B 295 REMARK 465 HIS B 296 REMARK 465 HIS B 297 REMARK 465 GLU B 298 REMARK 465 LEU B 299 REMARK 465 PRO B 300 REMARK 465 PRO B 301 REMARK 465 GLY B 302 REMARK 465 SER B 303 REMARK 465 THR B 304 REMARK 465 LYS B 305 REMARK 465 ARG B 306 REMARK 465 ALA B 307 REMARK 465 LEU B 308 REMARK 465 PRO B 309 REMARK 465 ASN B 310 REMARK 465 ASN B 311 REMARK 465 THR B 312 REMARK 465 HIS B 313 REMARK 465 HIS B 314 REMARK 465 HIS B 315 REMARK 465 HIS B 316 REMARK 465 HIS B 317 REMARK 465 HIS B 318 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 VAL A 3 CG1 CG2 REMARK 470 GLN A 4 CG CD OE1 NE2 REMARK 470 LEU A 12 CD1 CD2 REMARK 470 VAL A 13 CG1 CG2 REMARK 470 ARG A 20 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 28 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 44 CD NE REMARK 470 GLU A 45 CG CD OE1 OE2 REMARK 470 GLU A 63 CG CD OE1 OE2 REMARK 470 VAL A 65 CG1 CG2 REMARK 470 LYS A 66 NZ REMARK 470 ASP A 67 CG OD1 OD2 REMARK 470 LYS A 77 CG CD CE NZ REMARK 470 GLU A 83 CD OE1 OE2 REMARK 470 LEU A 109 CG CD1 CD2 REMARK 470 GLN A 116 CD OE1 NE2 REMARK 470 LYS B 101 CE NZ REMARK 470 LYS B 120 CE NZ REMARK 470 ARG B 209 CG CD NE CZ NH1 NH2 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 SER A 129 O HOH A 265 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 B 663 O HOH B 666 3545 2.18 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 HIS A 100 66.71 64.29 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 B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 176 SG REMARK 620 2 HIS B 179 ND1 104.3 REMARK 620 3 CYS B 238 SG 111.7 109.5 REMARK 620 4 CYS B 242 SG 113.0 102.3 115.0 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 B 401 DBREF 4QO1 B 92 312 UNP P04637 P53_HUMAN 92 312 DBREF 4QO1 A 1 154 PDB 4QO1 4QO1 1 154 SEQADV 4QO1 HIS B 313 UNP P04637 EXPRESSION TAG SEQADV 4QO1 HIS B 314 UNP P04637 EXPRESSION TAG SEQADV 4QO1 HIS B 315 UNP P04637 EXPRESSION TAG SEQADV 4QO1 HIS B 316 UNP P04637 EXPRESSION TAG SEQADV 4QO1 HIS B 317 UNP P04637 EXPRESSION TAG SEQADV 4QO1 HIS B 318 UNP P04637 EXPRESSION TAG SEQRES 1 A 154 ALA GLN VAL GLN LEU GLN GLU SER GLY GLY GLY LEU VAL SEQRES 2 A 154 GLN ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER SEQRES 3 A 154 GLU ARG THR PHE SER THR TYR ALA MET GLY TRP PHE ARG SEQRES 4 A 154 GLN ALA PRO GLY ARG GLU ARG GLU PHE LEU ALA GLN ILE SEQRES 5 A 154 ASN TRP SER GLY THR THR THR TYR TYR ALA GLU SER VAL SEQRES 6 A 154 LYS ASP ARG THR THR ILE SER ARG ASP ASN ALA LYS ASN SEQRES 7 A 154 THR VAL TYR LEU GLU MET ASN ASN LEU ASN ALA ASP ASP SEQRES 8 A 154 THR GLY ILE TYR PHE CYS ALA ALA HIS PRO GLN ARG GLY SEQRES 9 A 154 TRP GLY SER THR LEU GLY TRP THR TYR TRP GLY GLN GLY SEQRES 10 A 154 THR GLN VAL THR VAL SER SER GLY GLY GLY GLY SER GLY SEQRES 11 A 154 GLY GLY LYS PRO ILE PRO ASN PRO LEU LEU GLY LEU ASP SEQRES 12 A 154 SER THR ARG THR GLY HIS HIS HIS HIS HIS HIS SEQRES 1 B 227 PRO LEU SER SER SER VAL PRO SER GLN LYS THR TYR GLN SEQRES 2 B 227 GLY SER TYR GLY PHE ARG LEU GLY PHE LEU HIS SER GLY SEQRES 3 B 227 THR ALA LYS SER VAL THR CYS THR TYR SER PRO ALA LEU SEQRES 4 B 227 ASN LYS MET PHE CYS GLN LEU ALA LYS THR CYS PRO VAL SEQRES 5 B 227 GLN LEU TRP VAL ASP SER THR PRO PRO PRO GLY THR ARG SEQRES 6 B 227 VAL ARG ALA MET ALA ILE TYR LYS GLN SER GLN HIS MET SEQRES 7 B 227 THR GLU VAL VAL ARG ARG CYS PRO HIS HIS GLU ARG CYS SEQRES 8 B 227 SER ASP SER ASP GLY LEU ALA PRO PRO GLN HIS LEU ILE SEQRES 9 B 227 ARG VAL GLU GLY ASN LEU ARG VAL GLU TYR LEU ASP ASP SEQRES 10 B 227 ARG ASN THR PHE ARG HIS SER VAL VAL VAL PRO TYR GLU SEQRES 11 B 227 PRO PRO GLU VAL GLY SER ASP CYS THR THR ILE HIS TYR SEQRES 12 B 227 ASN TYR MET CYS ASN SER SER CYS MET GLY GLY MET ASN SEQRES 13 B 227 ARG ARG PRO ILE LEU THR ILE ILE THR LEU GLU ASP SER SEQRES 14 B 227 SER GLY ASN LEU LEU GLY ARG ASN SER PHE GLU VAL ARG SEQRES 15 B 227 VAL CYS ALA CYS PRO GLY ARG ASP ARG ARG THR GLU GLU SEQRES 16 B 227 GLU ASN LEU ARG LYS LYS GLY GLU PRO HIS HIS GLU LEU SEQRES 17 B 227 PRO PRO GLY SER THR LYS ARG ALA LEU PRO ASN ASN THR SEQRES 18 B 227 HIS HIS HIS HIS HIS HIS HET ZN B 401 1 HETNAM ZN ZINC ION FORMUL 3 ZN ZN 2+ FORMUL 4 HOH *304(H2 O) HELIX 1 1 GLU A 27 TYR A 33 5 7 HELIX 2 2 VAL A 65 ASP A 67 5 3 HELIX 3 3 ASN A 75 LYS A 77 5 3 HELIX 4 4 ASN A 88 THR A 92 5 5 HELIX 5 5 GLN B 165 MET B 169 5 5 HELIX 6 6 CYS B 176 CYS B 182 1 7 HELIX 7 7 CYS B 277 ASN B 288 1 12 SHEET 1 A 4 LEU A 5 SER A 8 0 SHEET 2 A 4 LEU A 19 ALA A 25 -1 O SER A 22 N SER A 8 SHEET 3 A 4 THR A 79 MET A 84 -1 O LEU A 82 N LEU A 21 SHEET 4 A 4 THR A 69 ASP A 74 -1 N SER A 72 O TYR A 81 SHEET 1 B 6 GLY A 11 GLN A 14 0 SHEET 2 B 6 THR A 118 SER A 123 1 O THR A 121 N VAL A 13 SHEET 3 B 6 GLY A 93 PRO A 101 -1 N TYR A 95 O THR A 118 SHEET 4 B 6 MET A 35 GLN A 40 -1 N PHE A 38 O PHE A 96 SHEET 5 B 6 GLU A 47 ILE A 52 -1 O GLU A 47 N ARG A 39 SHEET 6 B 6 THR A 59 TYR A 61 -1 O TYR A 60 N GLN A 51 SHEET 1 C 4 GLY A 11 GLN A 14 0 SHEET 2 C 4 THR A 118 SER A 123 1 O THR A 121 N VAL A 13 SHEET 3 C 4 GLY A 93 PRO A 101 -1 N TYR A 95 O THR A 118 SHEET 4 C 4 TRP A 111 TRP A 114 -1 O TYR A 113 N ALA A 99 SHEET 1 D 4 ARG B 110 GLY B 112 0 SHEET 2 D 4 CYS B 141 TRP B 146 -1 O GLN B 144 N GLY B 112 SHEET 3 D 4 THR B 230 TYR B 236 -1 O THR B 230 N LEU B 145 SHEET 4 D 4 ILE B 195 GLU B 198 -1 N GLU B 198 O HIS B 233 SHEET 1 E 7 CYS B 124 SER B 127 0 SHEET 2 E 7 LYS B 132 CYS B 135 -1 O LYS B 132 N SER B 127 SHEET 3 E 7 LEU B 264 VAL B 274 1 O GLU B 271 N MET B 133 SHEET 4 E 7 ILE B 251 GLU B 258 -1 N THR B 253 O PHE B 270 SHEET 5 E 7 ARG B 156 TYR B 163 -1 N MET B 160 O ILE B 254 SHEET 6 E 7 HIS B 214 PRO B 219 -1 O VAL B 218 N VAL B 157 SHEET 7 E 7 GLU B 204 ASP B 207 -1 N GLU B 204 O VAL B 217 SSBOND 1 CYS A 23 CYS A 97 1555 1555 2.04 LINK SG CYS B 176 ZN ZN B 401 1555 1555 2.45 LINK ND1 HIS B 179 ZN ZN B 401 1555 1555 2.00 LINK SG CYS B 238 ZN ZN B 401 1555 1555 2.37 LINK SG CYS B 242 ZN ZN B 401 1555 1555 2.21 SITE 1 AC1 4 CYS B 176 HIS B 179 CYS B 238 CYS B 242 CRYST1 46.360 68.280 109.960 90.00 90.00 90.00 P 21 21 21 4 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 0.021570 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014646 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009094 0.00000