HEADER VIRAL PROTEIN 31-MAY-23 8P87 TITLE CRYSTAL STRUCTURE OF THE MAIN PROTEASE (3CLPRO/MPRO) OF SARS-COV-2 TITLE 2 OBTAINED IN PRESENCE OF 5 MM X77, FROM AN "OLD" CRYSTAL. COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3C-LIKE PROTEINASE NSP5; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 3CL-PRO,3CLP,MAIN PROTEASE,MPRO,NON-STRUCTURAL PROTEIN 5, COMPND 5 NSP5,SARS CORONAVIRUS MAIN PROTEINASE; COMPND 6 EC: 3.4.22.69; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 3 2; SOURCE 4 ORGANISM_TAXID: 2697049; SOURCE 5 GENE: REP, 1A-1B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS SARS-COV-2, MPRO, 3CLPRO, EXSCALATE4COV, DRUG DISCOVERY, ELETTRA, KEYWDS 2 VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.COSTANZI,N.DEMITRI,P.STORICI REVDAT 1 01-MAY-24 8P87 0 JRNL AUTH S.ALBANI,E.COSTANZI,G.L.HOANG,M.KUZIKOV,M.FRINGS,N.ANSARI, JRNL AUTH 2 N.DEMITRI,T.T.NGUYEN,V.RIZZI,J.B.SCHULZ,C.BOLM,A.ZALIANI, JRNL AUTH 3 P.CARLONI,P.STORICI,G.ROSSETTI JRNL TITL UNEXPECTED SINGLE-LIGAND OCCUPANCY AND NEGATIVE JRNL TITL 2 COOPERATIVITY IN THE SARS-COV-2 MAIN PROTEASE. JRNL REF J.CHEM.INF.MODEL. V. 64 892 2024 JRNL REFN ESSN 1549-960X JRNL PMID 38051605 JRNL DOI 10.1021/ACS.JCIM.3C01497 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.57 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 79486 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 4021 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 50.5700 - 5.2200 1.00 2796 154 0.1874 0.1905 REMARK 3 2 5.2200 - 4.1500 1.00 2704 128 0.1295 0.1486 REMARK 3 3 4.1400 - 3.6200 1.00 2640 162 0.1409 0.1531 REMARK 3 4 3.6200 - 3.2900 1.00 2655 130 0.1548 0.1855 REMARK 3 5 3.2900 - 3.0500 1.00 2603 154 0.1724 0.2003 REMARK 3 6 3.0500 - 2.8700 1.00 2631 148 0.1672 0.1796 REMARK 3 7 2.8700 - 2.7300 1.00 2590 144 0.1633 0.1850 REMARK 3 8 2.7300 - 2.6100 1.00 2612 134 0.1651 0.1946 REMARK 3 9 2.6100 - 2.5100 1.00 2628 124 0.1717 0.1857 REMARK 3 10 2.5100 - 2.4200 1.00 2573 146 0.1719 0.2215 REMARK 3 11 2.4200 - 2.3500 1.00 2610 111 0.1681 0.2180 REMARK 3 12 2.3500 - 2.2800 1.00 2640 131 0.1662 0.1655 REMARK 3 13 2.2800 - 2.2200 1.00 2586 131 0.1633 0.1954 REMARK 3 14 2.2200 - 2.1700 1.00 2571 150 0.1608 0.2006 REMARK 3 15 2.1700 - 2.1200 1.00 2569 161 0.1637 0.1932 REMARK 3 16 2.1200 - 2.0700 1.00 2579 149 0.1710 0.2178 REMARK 3 17 2.0700 - 2.0300 1.00 2571 133 0.1816 0.2328 REMARK 3 18 2.0300 - 1.9900 1.00 2538 158 0.1867 0.2082 REMARK 3 19 1.9900 - 1.9600 1.00 2628 137 0.1968 0.2400 REMARK 3 20 1.9600 - 1.9200 1.00 2560 150 0.2071 0.2346 REMARK 3 21 1.9200 - 1.8900 1.00 2579 129 0.2158 0.2459 REMARK 3 22 1.8900 - 1.8600 1.00 2568 142 0.2193 0.2490 REMARK 3 23 1.8600 - 1.8400 1.00 2566 143 0.2253 0.2383 REMARK 3 24 1.8400 - 1.8100 1.00 2571 149 0.2296 0.2348 REMARK 3 25 1.8100 - 1.7900 1.00 2575 121 0.2394 0.2254 REMARK 3 26 1.7900 - 1.7600 1.00 2570 138 0.2519 0.2545 REMARK 3 27 1.7600 - 1.7400 1.00 2561 133 0.2573 0.2564 REMARK 3 28 1.7400 - 1.7200 1.00 2627 114 0.2724 0.3147 REMARK 3 29 1.7200 - 1.7000 1.00 2564 117 0.2879 0.2755 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) : 0.171 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.624 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.86 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.99 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 4936 REMARK 3 ANGLE : 0.931 6718 REMARK 3 CHIRALITY : 0.061 755 REMARK 3 PLANARITY : 0.008 878 REMARK 3 DIHEDRAL : 13.590 1781 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 13 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.1929 -7.3054 -18.3405 REMARK 3 T TENSOR REMARK 3 T11: 0.1755 T22: 0.1777 REMARK 3 T33: 0.1651 T12: 0.0414 REMARK 3 T13: -0.0038 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 2.7404 L22: 1.0256 REMARK 3 L33: 2.8917 L12: -0.1304 REMARK 3 L13: -0.8399 L23: -0.0988 REMARK 3 S TENSOR REMARK 3 S11: -0.0785 S12: -0.1338 S13: 0.0038 REMARK 3 S21: 0.0656 S22: -0.0097 S23: -0.0597 REMARK 3 S31: 0.0274 S32: 0.2891 S33: 0.1044 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 91 ) REMARK 3 ORIGIN FOR THE GROUP (A): 32.8942 -6.1976 -24.8115 REMARK 3 T TENSOR REMARK 3 T11: 0.1938 T22: 0.3811 REMARK 3 T33: 0.2719 T12: 0.0585 REMARK 3 T13: 0.0033 T23: 0.0186 REMARK 3 L TENSOR REMARK 3 L11: 2.8629 L22: 0.6325 REMARK 3 L33: 3.8370 L12: 0.4535 REMARK 3 L13: -1.7916 L23: -0.7376 REMARK 3 S TENSOR REMARK 3 S11: -0.0119 S12: -0.2698 S13: 0.1182 REMARK 3 S21: 0.1268 S22: -0.0014 S23: -0.1054 REMARK 3 S31: -0.1750 S32: 0.5406 S33: 0.0512 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 92 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.6721 -16.4257 -21.4630 REMARK 3 T TENSOR REMARK 3 T11: 0.2353 T22: 0.1652 REMARK 3 T33: 0.2283 T12: 0.0487 REMARK 3 T13: 0.0542 T23: 0.0193 REMARK 3 L TENSOR REMARK 3 L11: 3.6352 L22: 1.9318 REMARK 3 L33: 5.1780 L12: -1.7769 REMARK 3 L13: 2.3607 L23: -1.7121 REMARK 3 S TENSOR REMARK 3 S11: -0.1065 S12: -0.1392 S13: -0.2200 REMARK 3 S21: 0.0702 S22: -0.0587 S23: 0.0630 REMARK 3 S31: 0.3563 S32: 0.2308 S33: 0.0750 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 180 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.0502 -4.8103 -24.4847 REMARK 3 T TENSOR REMARK 3 T11: 0.1698 T22: 0.1646 REMARK 3 T33: 0.2103 T12: 0.0052 REMARK 3 T13: -0.0078 T23: 0.0045 REMARK 3 L TENSOR REMARK 3 L11: 3.5994 L22: 1.0129 REMARK 3 L33: 3.5605 L12: -0.1961 REMARK 3 L13: -0.5916 L23: 0.4043 REMARK 3 S TENSOR REMARK 3 S11: -0.0417 S12: 0.0435 S13: 0.0727 REMARK 3 S21: 0.0201 S22: -0.0435 S23: -0.0606 REMARK 3 S31: -0.0859 S32: 0.1202 S33: 0.0806 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 181 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.0503 -3.5576 -34.2567 REMARK 3 T TENSOR REMARK 3 T11: 0.1814 T22: 0.2586 REMARK 3 T33: 0.1924 T12: 0.0146 REMARK 3 T13: -0.0083 T23: 0.0203 REMARK 3 L TENSOR REMARK 3 L11: 6.2151 L22: 0.6159 REMARK 3 L33: 0.5677 L12: 0.0020 REMARK 3 L13: 0.1320 L23: 0.0551 REMARK 3 S TENSOR REMARK 3 S11: -0.0223 S12: 0.4965 S13: 0.4324 REMARK 3 S21: -0.0884 S22: 0.0333 S23: -0.0235 REMARK 3 S31: -0.0219 S32: 0.0957 S33: -0.0434 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 274 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.2615 -8.5033 -36.9933 REMARK 3 T TENSOR REMARK 3 T11: 0.1841 T22: 0.2206 REMARK 3 T33: 0.2137 T12: 0.0066 REMARK 3 T13: -0.0238 T23: -0.0184 REMARK 3 L TENSOR REMARK 3 L11: 2.3458 L22: 2.0788 REMARK 3 L33: 1.8941 L12: -0.6654 REMARK 3 L13: 0.4933 L23: -0.3276 REMARK 3 S TENSOR REMARK 3 S11: -0.0092 S12: -0.1175 S13: -0.1841 REMARK 3 S21: -0.0493 S22: 0.0451 S23: 0.1332 REMARK 3 S31: 0.0442 S32: -0.0260 S33: -0.0343 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 275 THROUGH 306 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.1017 -6.0519 -24.3667 REMARK 3 T TENSOR REMARK 3 T11: 0.2461 T22: 0.4265 REMARK 3 T33: 0.3112 T12: 0.0236 REMARK 3 T13: 0.0243 T23: -0.0130 REMARK 3 L TENSOR REMARK 3 L11: 3.3271 L22: 3.9838 REMARK 3 L33: 2.9351 L12: -2.6712 REMARK 3 L13: 0.5906 L23: 0.5774 REMARK 3 S TENSOR REMARK 3 S11: -0.2574 S12: -0.5598 S13: -0.2670 REMARK 3 S21: 0.4308 S22: 0.3234 S23: 0.5309 REMARK 3 S31: -0.1248 S32: -0.3173 S33: -0.0496 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.2248 -10.8357 -1.3999 REMARK 3 T TENSOR REMARK 3 T11: 0.2360 T22: 0.1304 REMARK 3 T33: 0.2026 T12: 0.0226 REMARK 3 T13: 0.0256 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 2.7946 L22: 1.1949 REMARK 3 L33: 3.5787 L12: -0.3997 REMARK 3 L13: -1.3259 L23: -0.4984 REMARK 3 S TENSOR REMARK 3 S11: -0.1698 S12: -0.1458 S13: -0.3633 REMARK 3 S21: -0.0147 S22: -0.0370 S23: 0.0488 REMARK 3 S31: 0.4306 S32: 0.0864 S33: 0.1917 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 44 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.2180 -13.6001 8.5566 REMARK 3 T TENSOR REMARK 3 T11: 0.3518 T22: 0.2183 REMARK 3 T33: 0.2705 T12: 0.0208 REMARK 3 T13: 0.0501 T23: 0.0693 REMARK 3 L TENSOR REMARK 3 L11: 3.4239 L22: 2.7475 REMARK 3 L33: 3.6376 L12: -1.3071 REMARK 3 L13: -0.4984 L23: -0.0683 REMARK 3 S TENSOR REMARK 3 S11: -0.2318 S12: -0.4087 S13: -0.6915 REMARK 3 S21: 0.1683 S22: 0.0750 S23: 0.3632 REMARK 3 S31: 0.7153 S32: -0.0533 S33: 0.0676 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 111 THROUGH 200 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.4249 -2.8448 -4.1541 REMARK 3 T TENSOR REMARK 3 T11: 0.1917 T22: 0.1454 REMARK 3 T33: 0.1772 T12: -0.0097 REMARK 3 T13: 0.0094 T23: 0.0199 REMARK 3 L TENSOR REMARK 3 L11: 2.3813 L22: 1.6295 REMARK 3 L33: 2.8878 L12: -0.7278 REMARK 3 L13: -0.7593 L23: -0.2348 REMARK 3 S TENSOR REMARK 3 S11: 0.0524 S12: 0.0650 S13: -0.1238 REMARK 3 S21: -0.0722 S22: -0.0258 S23: 0.0435 REMARK 3 S31: 0.1095 S32: -0.1742 S33: -0.0166 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 201 THROUGH 226 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.8482 20.8003 -20.9910 REMARK 3 T TENSOR REMARK 3 T11: 0.3153 T22: 0.1795 REMARK 3 T33: 0.2430 T12: -0.0056 REMARK 3 T13: 0.0893 T23: 0.0165 REMARK 3 L TENSOR REMARK 3 L11: 0.9509 L22: 3.7555 REMARK 3 L33: 1.9007 L12: 0.1478 REMARK 3 L13: 0.4901 L23: -2.4454 REMARK 3 S TENSOR REMARK 3 S11: 0.0746 S12: 0.1629 S13: 0.1933 REMARK 3 S21: -0.2196 S22: -0.0482 S23: -0.3755 REMARK 3 S31: -0.3717 S32: 0.0207 S33: -0.0465 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 227 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.1867 18.9137 -15.7462 REMARK 3 T TENSOR REMARK 3 T11: 0.3891 T22: 0.1757 REMARK 3 T33: 0.2017 T12: -0.0040 REMARK 3 T13: 0.0670 T23: -0.0032 REMARK 3 L TENSOR REMARK 3 L11: 3.7257 L22: 4.8745 REMARK 3 L33: 5.1253 L12: 0.0772 REMARK 3 L13: -1.2239 L23: -0.3277 REMARK 3 S TENSOR REMARK 3 S11: 0.1860 S12: 0.0855 S13: 0.3371 REMARK 3 S21: 0.1708 S22: 0.0976 S23: 0.0012 REMARK 3 S31: -0.9406 S32: 0.0475 S33: -0.1951 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 302 THROUGH 305 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.5395 3.6475 -9.7306 REMARK 3 T TENSOR REMARK 3 T11: 0.6888 T22: 1.1479 REMARK 3 T33: 1.1771 T12: 0.0251 REMARK 3 T13: 0.0668 T23: 0.0862 REMARK 3 L TENSOR REMARK 3 L11: 0.3765 L22: 0.0557 REMARK 3 L33: 0.3624 L12: 0.1333 REMARK 3 L13: -0.3625 L23: -0.1174 REMARK 3 S TENSOR REMARK 3 S11: -0.2132 S12: -0.2598 S13: -0.0589 REMARK 3 S21: -0.1740 S22: -0.3065 S23: 0.2107 REMARK 3 S31: -0.1641 S32: -0.2159 S33: 0.2257 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 8P87 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-MAY-23. REMARK 100 THE DEPOSITION ID IS D_1292130709. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAY-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 : ELETTRA REMARK 200 BEAMLINE : 11.2C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9999 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 : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 79582 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 101.140 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.100 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM FORMATE, 0.1M AMMONIUM REMARK 280 ACETATE, 0.1M SODIUM CITRATE TRIBASIC DIHYDRATE, 0.1M POTASSIUM REMARK 280 SODIUM TARTRATE TETRAHYDRATE, 0.1M SODIUM OXAMATE, 0.1 M HEPES/ REMARK 280 MOPS PH 7.5, 20% V/V ETHYLENE GLYCOL, 10 % W/V PEG 8000, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 33.92400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.12900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.56900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.12900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.92400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.56900 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 GLN B 306 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 ASP A 33 -130.06 53.13 REMARK 500 ASN A 84 -122.95 55.33 REMARK 500 ALA A 191 107.07 -52.20 REMARK 500 ASP B 33 -132.27 48.42 REMARK 500 ASN B 51 71.21 -154.05 REMARK 500 ASN B 84 -127.93 53.88 REMARK 500 TYR B 154 -103.38 65.64 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 821 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH A 822 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A 823 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH A 824 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH A 825 DISTANCE = 6.52 ANGSTROMS REMARK 525 HOH B 717 DISTANCE = 7.02 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 NA B 403 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 221 O REMARK 620 2 ASN B 221 OD1 74.7 REMARK 620 3 PHE B 223 O 116.4 94.6 REMARK 620 4 ASP B 263 O 151.9 117.1 89.1 REMARK 620 5 ASP B 263 OD1 99.6 171.1 94.1 65.0 REMARK 620 6 HOH B 510 O 82.0 94.7 161.1 72.0 77.5 REMARK 620 N 1 2 3 4 5 DBREF 8P87 A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 8P87 B 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 SEQRES 1 A 306 SER GLY PHE ARG LYS MET ALA PHE PRO SER GLY LYS VAL SEQRES 2 A 306 GLU GLY CYS MET VAL GLN VAL THR CYS GLY THR THR THR SEQRES 3 A 306 LEU ASN GLY LEU TRP LEU ASP ASP VAL VAL TYR CYS PRO SEQRES 4 A 306 ARG HIS VAL ILE CYS THR SER GLU ASP MET LEU ASN PRO SEQRES 5 A 306 ASN TYR GLU ASP LEU LEU ILE ARG LYS SER ASN HIS ASN SEQRES 6 A 306 PHE LEU VAL GLN ALA GLY ASN VAL GLN LEU ARG VAL ILE SEQRES 7 A 306 GLY HIS SER MET GLN ASN CYS VAL LEU LYS LEU LYS VAL SEQRES 8 A 306 ASP THR ALA ASN PRO LYS THR PRO LYS TYR LYS PHE VAL SEQRES 9 A 306 ARG ILE GLN PRO GLY GLN THR PHE SER VAL LEU ALA CYS SEQRES 10 A 306 TYR ASN GLY SER PRO SER GLY VAL TYR GLN CYS ALA MET SEQRES 11 A 306 ARG PRO ASN PHE THR ILE LYS GLY SER PHE LEU ASN GLY SEQRES 12 A 306 SER CYS GLY SER VAL GLY PHE ASN ILE ASP TYR ASP CYS SEQRES 13 A 306 VAL SER PHE CYS TYR MET HIS HIS MET GLU LEU PRO THR SEQRES 14 A 306 GLY VAL HIS ALA GLY THR ASP LEU GLU GLY ASN PHE TYR SEQRES 15 A 306 GLY PRO PHE VAL ASP ARG GLN THR ALA GLN ALA ALA GLY SEQRES 16 A 306 THR ASP THR THR ILE THR VAL ASN VAL LEU ALA TRP LEU SEQRES 17 A 306 TYR ALA ALA VAL ILE ASN GLY ASP ARG TRP PHE LEU ASN SEQRES 18 A 306 ARG PHE THR THR THR LEU ASN ASP PHE ASN LEU VAL ALA SEQRES 19 A 306 MET LYS TYR ASN TYR GLU PRO LEU THR GLN ASP HIS VAL SEQRES 20 A 306 ASP ILE LEU GLY PRO LEU SER ALA GLN THR GLY ILE ALA SEQRES 21 A 306 VAL LEU ASP MET CYS ALA SER LEU LYS GLU LEU LEU GLN SEQRES 22 A 306 ASN GLY MET ASN GLY ARG THR ILE LEU GLY SER ALA LEU SEQRES 23 A 306 LEU GLU ASP GLU PHE THR PRO PHE ASP VAL VAL ARG GLN SEQRES 24 A 306 CYS SER GLY VAL THR PHE GLN SEQRES 1 B 306 SER GLY PHE ARG LYS MET ALA PHE PRO SER GLY LYS VAL SEQRES 2 B 306 GLU GLY CYS MET VAL GLN VAL THR CYS GLY THR THR THR SEQRES 3 B 306 LEU ASN GLY LEU TRP LEU ASP ASP VAL VAL TYR CYS PRO SEQRES 4 B 306 ARG HIS VAL ILE CYS THR SER GLU ASP MET LEU ASN PRO SEQRES 5 B 306 ASN TYR GLU ASP LEU LEU ILE ARG LYS SER ASN HIS ASN SEQRES 6 B 306 PHE LEU VAL GLN ALA GLY ASN VAL GLN LEU ARG VAL ILE SEQRES 7 B 306 GLY HIS SER MET GLN ASN CYS VAL LEU LYS LEU LYS VAL SEQRES 8 B 306 ASP THR ALA ASN PRO LYS THR PRO LYS TYR LYS PHE VAL SEQRES 9 B 306 ARG ILE GLN PRO GLY GLN THR PHE SER VAL LEU ALA CYS SEQRES 10 B 306 TYR ASN GLY SER PRO SER GLY VAL TYR GLN CYS ALA MET SEQRES 11 B 306 ARG PRO ASN PHE THR ILE LYS GLY SER PHE LEU ASN GLY SEQRES 12 B 306 SER CYS GLY SER VAL GLY PHE ASN ILE ASP TYR ASP CYS SEQRES 13 B 306 VAL SER PHE CYS TYR MET HIS HIS MET GLU LEU PRO THR SEQRES 14 B 306 GLY VAL HIS ALA GLY THR ASP LEU GLU GLY ASN PHE TYR SEQRES 15 B 306 GLY PRO PHE VAL ASP ARG GLN THR ALA GLN ALA ALA GLY SEQRES 16 B 306 THR ASP THR THR ILE THR VAL ASN VAL LEU ALA TRP LEU SEQRES 17 B 306 TYR ALA ALA VAL ILE ASN GLY ASP ARG TRP PHE LEU ASN SEQRES 18 B 306 ARG PHE THR THR THR LEU ASN ASP PHE ASN LEU VAL ALA SEQRES 19 B 306 MET LYS TYR ASN TYR GLU PRO LEU THR GLN ASP HIS VAL SEQRES 20 B 306 ASP ILE LEU GLY PRO LEU SER ALA GLN THR GLY ILE ALA SEQRES 21 B 306 VAL LEU ASP MET CYS ALA SER LEU LYS GLU LEU LEU GLN SEQRES 22 B 306 ASN GLY MET ASN GLY ARG THR ILE LEU GLY SER ALA LEU SEQRES 23 B 306 LEU GLU ASP GLU PHE THR PRO PHE ASP VAL VAL ARG GLN SEQRES 24 B 306 CYS SER GLY VAL THR PHE GLN HET ACT A 401 7 HET EDO A 402 10 HET CL A 403 1 HET X77 A 404 66 HET EDO B 401 10 HET ACT B 402 7 HET NA B 403 1 HET CL B 404 1 HETNAM ACT ACETATE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETNAM X77 N-(4-TERT-BUTYLPHENYL)-N-[(1R)-2-(CYCLOHEXYLAMINO)-2- HETNAM 2 X77 OXO-1-(PYRIDIN-3-YL)ETHYL]-1H-IMIDAZOLE-4-CARBOXAMIDE HETNAM NA SODIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ACT 2(C2 H3 O2 1-) FORMUL 4 EDO 2(C2 H6 O2) FORMUL 5 CL 2(CL 1-) FORMUL 6 X77 C27 H33 N5 O2 FORMUL 9 NA NA 1+ FORMUL 11 HOH *542(H2 O) HELIX 1 AA1 SER A 10 GLY A 15 1 6 HELIX 2 AA2 HIS A 41 CYS A 44 5 4 HELIX 3 AA3 THR A 45 MET A 49 5 5 HELIX 4 AA4 ASN A 53 ARG A 60 1 8 HELIX 5 AA5 SER A 62 HIS A 64 5 3 HELIX 6 AA6 ILE A 152 CYS A 156 5 5 HELIX 7 AA7 ILE A 200 ASN A 214 1 15 HELIX 8 AA8 THR A 226 MET A 235 1 10 HELIX 9 AA9 LYS A 236 ASN A 238 5 3 HELIX 10 AB1 THR A 243 LEU A 250 1 8 HELIX 11 AB2 LEU A 250 GLY A 258 1 9 HELIX 12 AB3 ALA A 260 GLY A 275 1 16 HELIX 13 AB4 THR A 292 CYS A 300 1 9 HELIX 14 AB5 SER B 10 GLY B 15 1 6 HELIX 15 AB6 HIS B 41 CYS B 44 5 4 HELIX 16 AB7 GLU B 47 ASN B 51 5 5 HELIX 17 AB8 ASN B 53 LYS B 61 1 9 HELIX 18 AB9 SER B 62 PHE B 66 5 5 HELIX 19 AC1 ILE B 200 ASN B 214 1 15 HELIX 20 AC2 THR B 226 TYR B 237 1 12 HELIX 21 AC3 THR B 243 LEU B 250 1 8 HELIX 22 AC4 LEU B 250 GLY B 258 1 9 HELIX 23 AC5 ALA B 260 GLY B 275 1 16 HELIX 24 AC6 THR B 292 GLY B 302 1 11 SHEET 1 AA1 7 VAL A 73 LEU A 75 0 SHEET 2 AA1 7 PHE A 66 ALA A 70 -1 N ALA A 70 O VAL A 73 SHEET 3 AA1 7 MET A 17 CYS A 22 -1 N THR A 21 O LEU A 67 SHEET 4 AA1 7 THR A 25 LEU A 32 -1 O LEU A 27 N VAL A 20 SHEET 5 AA1 7 VAL A 35 PRO A 39 -1 O TYR A 37 N LEU A 30 SHEET 6 AA1 7 VAL A 86 VAL A 91 -1 O LEU A 89 N VAL A 36 SHEET 7 AA1 7 VAL A 77 GLN A 83 -1 N SER A 81 O LYS A 88 SHEET 1 AA2 5 TYR A 101 PHE A 103 0 SHEET 2 AA2 5 VAL A 157 GLU A 166 1 O PHE A 159 N LYS A 102 SHEET 3 AA2 5 VAL A 148 ASN A 151 -1 N ASN A 151 O SER A 158 SHEET 4 AA2 5 THR A 111 TYR A 118 -1 N SER A 113 O PHE A 150 SHEET 5 AA2 5 SER A 121 ALA A 129 -1 O SER A 123 N ALA A 116 SHEET 1 AA3 3 TYR A 101 PHE A 103 0 SHEET 2 AA3 3 VAL A 157 GLU A 166 1 O PHE A 159 N LYS A 102 SHEET 3 AA3 3 HIS A 172 THR A 175 -1 O ALA A 173 N MET A 165 SHEET 1 AA4 7 VAL B 73 LEU B 75 0 SHEET 2 AA4 7 LEU B 67 ALA B 70 -1 N ALA B 70 O VAL B 73 SHEET 3 AA4 7 MET B 17 CYS B 22 -1 N GLN B 19 O GLN B 69 SHEET 4 AA4 7 THR B 25 LEU B 32 -1 O LEU B 27 N VAL B 20 SHEET 5 AA4 7 VAL B 35 PRO B 39 -1 O TYR B 37 N LEU B 30 SHEET 6 AA4 7 VAL B 86 VAL B 91 -1 O LEU B 87 N CYS B 38 SHEET 7 AA4 7 VAL B 77 GLN B 83 -1 N SER B 81 O LYS B 88 SHEET 1 AA5 5 TYR B 101 PHE B 103 0 SHEET 2 AA5 5 CYS B 156 GLU B 166 1 O PHE B 159 N LYS B 102 SHEET 3 AA5 5 VAL B 148 ASP B 153 -1 N ASN B 151 O SER B 158 SHEET 4 AA5 5 THR B 111 TYR B 118 -1 N SER B 113 O PHE B 150 SHEET 5 AA5 5 SER B 121 ALA B 129 -1 O TYR B 126 N VAL B 114 SHEET 1 AA6 3 TYR B 101 PHE B 103 0 SHEET 2 AA6 3 CYS B 156 GLU B 166 1 O PHE B 159 N LYS B 102 SHEET 3 AA6 3 HIS B 172 THR B 175 -1 O ALA B 173 N MET B 165 LINK O ASN B 221 NA NA B 403 1555 1555 2.59 LINK OD1 ASN B 221 NA NA B 403 1555 1555 2.32 LINK O PHE B 223 NA NA B 403 1555 1555 2.27 LINK O ASP B 263 NA NA B 403 1555 1555 3.13 LINK OD1 ASP B 263 NA NA B 403 1555 1555 2.14 LINK NA NA B 403 O HOH B 510 1555 1555 2.39 CRYST1 67.848 101.138 104.258 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014739 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009887 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009592 0.00000