HEADER VIRAL PROTEIN 31-MAY-23 8P86 TITLE CRYSTAL STRUCTURE OF THE MAIN PROTEASE (3CLPRO/MPRO) OF SARS-COV-2 TITLE 2 OBTAINED IN PRESENCE OF 5 MM MG-132, 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 2 23-OCT-24 8P86 1 REMARK REVDAT 1 01-MAY-24 8P86 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. 1.85 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.39 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 60345 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 2921 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 49.3900 - 5.1000 0.98 2906 140 0.1877 0.2481 REMARK 3 2 5.1000 - 4.0500 0.99 2766 170 0.1331 0.1384 REMARK 3 3 4.0500 - 3.5400 1.00 2752 164 0.1528 0.1677 REMARK 3 4 3.5400 - 3.2200 1.00 2755 142 0.1656 0.1688 REMARK 3 5 3.2100 - 2.9800 1.00 2749 141 0.1810 0.2211 REMARK 3 6 2.9800 - 2.8100 1.00 2734 156 0.1797 0.1991 REMARK 3 7 2.8100 - 2.6700 1.00 2753 126 0.1709 0.2120 REMARK 3 8 2.6700 - 2.5500 1.00 2722 135 0.1658 0.1942 REMARK 3 9 2.5500 - 2.4500 1.00 2741 139 0.1687 0.2355 REMARK 3 10 2.4500 - 2.3700 1.00 2746 111 0.1723 0.2358 REMARK 3 11 2.3700 - 2.2900 1.00 2712 143 0.1705 0.1858 REMARK 3 12 2.2900 - 2.2300 1.00 2695 168 0.1759 0.2046 REMARK 3 13 2.2300 - 2.1700 1.00 2709 135 0.1820 0.2269 REMARK 3 14 2.1700 - 2.1200 1.00 2734 119 0.1864 0.2038 REMARK 3 15 2.1200 - 2.0700 1.00 2706 135 0.1885 0.1920 REMARK 3 16 2.0700 - 2.0300 1.00 2750 118 0.1971 0.2104 REMARK 3 17 2.0300 - 1.9900 1.00 2661 143 0.2113 0.2619 REMARK 3 18 1.9900 - 1.9500 1.00 2716 131 0.2222 0.2565 REMARK 3 19 1.9500 - 1.9100 1.00 2711 137 0.2363 0.2670 REMARK 3 20 1.9100 - 1.8800 1.00 2706 131 0.2627 0.3467 REMARK 3 21 1.8800 - 1.8500 1.00 2700 137 0.2874 0.3143 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) : 0.211 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.067 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.85 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.94 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 : 0.012 4822 REMARK 3 ANGLE : 1.144 6520 REMARK 3 CHIRALITY : 0.071 732 REMARK 3 PLANARITY : 0.009 841 REMARK 3 DIHEDRAL : 14.557 1728 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 12 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.3567 -6.7473 -18.2607 REMARK 3 T TENSOR REMARK 3 T11: 0.2075 T22: 0.2316 REMARK 3 T33: 0.1620 T12: 0.0390 REMARK 3 T13: 0.0055 T23: -0.0043 REMARK 3 L TENSOR REMARK 3 L11: 3.5334 L22: 1.8688 REMARK 3 L33: 3.5998 L12: -0.1686 REMARK 3 L13: -1.0907 L23: -0.5058 REMARK 3 S TENSOR REMARK 3 S11: -0.0683 S12: -0.0041 S13: 0.0417 REMARK 3 S21: 0.0345 S22: 0.0042 S23: -0.1147 REMARK 3 S31: 0.0072 S32: 0.1228 S33: 0.0863 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 91 ) REMARK 3 ORIGIN FOR THE GROUP (A): 33.3071 -5.2000 -24.5546 REMARK 3 T TENSOR REMARK 3 T11: 0.2351 T22: 0.4415 REMARK 3 T33: 0.3219 T12: 0.0412 REMARK 3 T13: 0.0020 T23: 0.0205 REMARK 3 L TENSOR REMARK 3 L11: 2.4848 L22: 0.8879 REMARK 3 L33: 5.2387 L12: 0.1376 REMARK 3 L13: -1.1040 L23: -1.0262 REMARK 3 S TENSOR REMARK 3 S11: -0.0093 S12: -0.3873 S13: 0.1829 REMARK 3 S21: 0.0870 S22: -0.0744 S23: -0.2709 REMARK 3 S31: -0.3551 S32: 0.6363 S33: 0.0714 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 92 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.1742 -15.7555 -21.2071 REMARK 3 T TENSOR REMARK 3 T11: 0.2593 T22: 0.1853 REMARK 3 T33: 0.2198 T12: 0.0421 REMARK 3 T13: 0.0400 T23: 0.0300 REMARK 3 L TENSOR REMARK 3 L11: 4.5489 L22: 2.5338 REMARK 3 L33: 5.4929 L12: -2.1285 REMARK 3 L13: 2.9859 L23: -2.1114 REMARK 3 S TENSOR REMARK 3 S11: -0.0281 S12: -0.2643 S13: -0.3374 REMARK 3 S21: -0.0376 S22: 0.0415 S23: 0.0488 REMARK 3 S31: 0.4424 S32: 0.0936 S33: -0.0948 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 180 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.1354 -4.1891 -24.4618 REMARK 3 T TENSOR REMARK 3 T11: 0.1779 T22: 0.1542 REMARK 3 T33: 0.1848 T12: -0.0002 REMARK 3 T13: 0.0013 T23: 0.0061 REMARK 3 L TENSOR REMARK 3 L11: 3.5060 L22: 0.7708 REMARK 3 L33: 4.6154 L12: 0.1383 REMARK 3 L13: -0.0244 L23: 0.1694 REMARK 3 S TENSOR REMARK 3 S11: -0.0181 S12: -0.0546 S13: 0.1055 REMARK 3 S21: 0.0214 S22: 0.0077 S23: -0.0054 REMARK 3 S31: -0.1174 S32: 0.1211 S33: 0.0268 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 181 THROUGH 260 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.4684 -6.7913 -36.0409 REMARK 3 T TENSOR REMARK 3 T11: 0.2249 T22: 0.2472 REMARK 3 T33: 0.2166 T12: 0.0006 REMARK 3 T13: -0.0096 T23: 0.0269 REMARK 3 L TENSOR REMARK 3 L11: 4.3860 L22: 0.3642 REMARK 3 L33: 0.4184 L12: -0.1835 REMARK 3 L13: 0.2237 L23: 0.2182 REMARK 3 S TENSOR REMARK 3 S11: -0.0947 S12: 0.2790 S13: -0.0098 REMARK 3 S21: -0.0861 S22: 0.0026 S23: 0.1227 REMARK 3 S31: -0.0426 S32: 0.0011 S33: 0.1083 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 261 THROUGH 300 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.9814 -4.1032 -29.8884 REMARK 3 T TENSOR REMARK 3 T11: 0.2120 T22: 0.3055 REMARK 3 T33: 0.2648 T12: 0.0047 REMARK 3 T13: 0.0313 T23: -0.0120 REMARK 3 L TENSOR REMARK 3 L11: 7.0036 L22: 3.7988 REMARK 3 L33: 3.5533 L12: 0.2529 REMARK 3 L13: -0.7598 L23: -0.0240 REMARK 3 S TENSOR REMARK 3 S11: -0.1085 S12: 0.0616 S13: 0.3513 REMARK 3 S21: 0.2331 S22: 0.1226 S23: 0.2769 REMARK 3 S31: -0.2319 S32: -0.1746 S33: 0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 22 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.0536 -6.8449 -7.9407 REMARK 3 T TENSOR REMARK 3 T11: 0.2173 T22: 0.2046 REMARK 3 T33: 0.1991 T12: 0.0245 REMARK 3 T13: 0.0363 T23: -0.0423 REMARK 3 L TENSOR REMARK 3 L11: 2.4184 L22: 4.4315 REMARK 3 L33: 6.0922 L12: 0.6036 REMARK 3 L13: -0.6169 L23: -2.9187 REMARK 3 S TENSOR REMARK 3 S11: 0.2368 S12: 0.1230 S13: -0.0137 REMARK 3 S21: 0.0302 S22: -0.3031 S23: 0.1398 REMARK 3 S31: 0.1773 S32: 0.1414 S33: -0.0118 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 23 THROUGH 70 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.6839 -17.6620 8.2789 REMARK 3 T TENSOR REMARK 3 T11: 0.5087 T22: 0.5538 REMARK 3 T33: 0.4127 T12: -0.2028 REMARK 3 T13: 0.0608 T23: 0.0512 REMARK 3 L TENSOR REMARK 3 L11: 1.2801 L22: 4.8084 REMARK 3 L33: 1.9393 L12: -0.3109 REMARK 3 L13: 1.5240 L23: -0.6607 REMARK 3 S TENSOR REMARK 3 S11: 0.2951 S12: -0.7284 S13: -0.4835 REMARK 3 S21: 0.3238 S22: -0.0842 S23: 0.8367 REMARK 3 S31: 0.5918 S32: -1.0040 S33: -0.1334 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 71 THROUGH 120 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.9161 -10.2531 4.5306 REMARK 3 T TENSOR REMARK 3 T11: 0.2383 T22: 0.2595 REMARK 3 T33: 0.1844 T12: -0.0676 REMARK 3 T13: 0.0366 T23: 0.0135 REMARK 3 L TENSOR REMARK 3 L11: 2.9297 L22: 3.0584 REMARK 3 L33: 4.5612 L12: -1.2976 REMARK 3 L13: 1.2943 L23: -1.0148 REMARK 3 S TENSOR REMARK 3 S11: 0.1622 S12: -0.3637 S13: -0.2494 REMARK 3 S21: 0.1698 S22: 0.0170 S23: 0.2274 REMARK 3 S31: 0.4142 S32: -0.3941 S33: -0.0895 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 121 THROUGH 139 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.3093 -1.0169 -8.6985 REMARK 3 T TENSOR REMARK 3 T11: 0.3035 T22: 0.3262 REMARK 3 T33: 0.2632 T12: 0.0580 REMARK 3 T13: 0.0487 T23: 0.0474 REMARK 3 L TENSOR REMARK 3 L11: 4.1789 L22: 4.2761 REMARK 3 L33: 1.2915 L12: -2.7293 REMARK 3 L13: -1.7965 L23: 2.3285 REMARK 3 S TENSOR REMARK 3 S11: -0.2138 S12: -0.0429 S13: -0.1729 REMARK 3 S21: 0.3031 S22: 0.1983 S23: 0.3788 REMARK 3 S31: 0.1591 S32: -0.2342 S33: -0.0049 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 140 THROUGH 226 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.3761 4.5439 -7.8303 REMARK 3 T TENSOR REMARK 3 T11: 0.2178 T22: 0.2144 REMARK 3 T33: 0.2142 T12: 0.0159 REMARK 3 T13: 0.0302 T23: -0.0314 REMARK 3 L TENSOR REMARK 3 L11: 1.0025 L22: 2.6337 REMARK 3 L33: 2.9179 L12: 0.2281 REMARK 3 L13: -0.2636 L23: -2.2053 REMARK 3 S TENSOR REMARK 3 S11: -0.0152 S12: -0.0614 S13: -0.0011 REMARK 3 S21: -0.0844 S22: 0.1899 S23: 0.2015 REMARK 3 S31: 0.0040 S32: -0.3853 S33: -0.1352 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 227 THROUGH 305 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.6710 18.1505 -15.0192 REMARK 3 T TENSOR REMARK 3 T11: 0.3955 T22: 0.1951 REMARK 3 T33: 0.2788 T12: 0.0320 REMARK 3 T13: 0.0445 T23: 0.0031 REMARK 3 L TENSOR REMARK 3 L11: 3.3418 L22: 3.7798 REMARK 3 L33: 4.0858 L12: -0.4635 REMARK 3 L13: -0.6603 L23: -0.4568 REMARK 3 S TENSOR REMARK 3 S11: -0.0441 S12: -0.0265 S13: 0.0140 REMARK 3 S21: 0.2216 S22: 0.0247 S23: 0.1118 REMARK 3 S31: -0.5614 S32: -0.1480 S33: 0.0392 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 8P86 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-JUN-23. REMARK 100 THE DEPOSITION ID IS D_1292130708. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-JAN-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) : 1.000 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 : 60427 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 102.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 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 (%): 52.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.06 M MAGNESIUM CHLORIDE HEXAHYDRATE, REMARK 280 0.06 M CALCIUM CHLORIDE DIHYDRATE, 0.1 M HEPES/MOPS PH 7.5, 20% REMARK 280 V/V PEG 500 MME, 10% W/V PEG 20000, VAPOR DIFFUSION, SITTING REMARK 280 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 34.18300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.40050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.67550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.40050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.18300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.67550 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 3.0 KCAL/MOL 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 SER A 301 REMARK 465 GLY A 302 REMARK 465 VAL A 303 REMARK 465 THR A 304 REMARK 465 PHE A 305 REMARK 465 GLN A 306 REMARK 465 THR B 45 REMARK 465 SER B 46 REMARK 465 GLU B 47 REMARK 465 ASP B 48 REMARK 465 MET B 49 REMARK 465 LEU B 50 REMARK 465 ASN B 51 REMARK 465 PRO B 52 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 LYS A 5 96.78 -57.01 REMARK 500 ASP A 33 -130.19 57.72 REMARK 500 ASN A 84 -127.13 50.78 REMARK 500 ASP A 155 1.68 58.23 REMARK 500 GLN A 189 38.90 -89.69 REMARK 500 ASP B 33 -131.77 51.01 REMARK 500 ASN B 84 -128.66 51.11 REMARK 500 TYR B 154 -97.46 58.60 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 NA A 413 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 221 O REMARK 620 2 ASN A 221 OD1 73.9 REMARK 620 3 PHE A 223 O 107.8 95.9 REMARK 620 4 ASP A 263 O 151.2 125.3 92.5 REMARK 620 5 ASP A 263 OD1 90.1 163.7 86.0 70.6 REMARK 620 6 HOH A 503 O 75.7 102.3 161.7 78.8 75.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 503 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 221 O REMARK 620 2 ASN B 221 OD1 71.5 REMARK 620 3 PHE B 223 O 112.5 98.8 REMARK 620 4 ASP B 263 O 151.0 122.1 91.8 REMARK 620 5 ASP B 263 OD1 91.8 161.2 95.4 69.4 REMARK 620 6 HOH B 606 O 78.0 98.5 161.9 74.7 68.9 REMARK 620 N 1 2 3 4 5 REMARK 630 REMARK 630 MOLECULE TYPE: NULL REMARK 630 MOLECULE NAME: N-[(BENZYLOXY)CARBONYL]-L-LEUCYL-N-[(2S)-1-HYDROXY- REMARK 630 4-METHYLPENTAN-2-YL]-L-LEUCINAMIDE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 ALD A 401 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: PHQ LEU LEU DCL REMARK 630 DETAILS: NULL DBREF 8P86 A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 8P86 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 ALD A 401 76 HET EDO A 402 10 HET EDO A 403 10 HET EDO A 404 10 HET EDO A 405 10 HET PEG A 406 17 HET EDO A 407 10 HET EDO A 408 10 HET EDO A 409 10 HET EDO A 410 10 HET PEG A 411 17 HET PEG A 412 17 HET NA A 413 1 HET EDO A 414 10 HET CL A 415 1 HET EDO B 501 10 HET EDO B 502 10 HET NA B 503 1 HETNAM ALD N-[(BENZYLOXY)CARBONYL]-L-LEUCYL-N-[(2S)-1-HYDROXY-4- HETNAM 2 ALD METHYLPENTAN-2-YL]-L-LEUCINAMIDE HETNAM EDO 1,2-ETHANEDIOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ALD C26 H43 N3 O5 FORMUL 4 EDO 11(C2 H6 O2) FORMUL 8 PEG 3(C4 H10 O3) FORMUL 15 NA 2(NA 1+) FORMUL 17 CL CL 1- FORMUL 21 HOH *254(H2 O) HELIX 1 AA1 SER A 10 GLY A 15 1 6 HELIX 2 AA2 HIS A 41 ILE A 43 5 3 HELIX 3 AA3 ASN A 53 ARG A 60 1 8 HELIX 4 AA4 LYS A 61 HIS A 64 5 4 HELIX 5 AA5 ILE A 200 ASN A 214 1 15 HELIX 6 AA6 THR A 226 TYR A 237 1 12 HELIX 7 AA7 THR A 243 LEU A 250 1 8 HELIX 8 AA8 LEU A 250 GLY A 258 1 9 HELIX 9 AA9 ALA A 260 GLY A 275 1 16 HELIX 10 AB1 THR A 292 CYS A 300 1 9 HELIX 11 AB2 SER B 10 GLY B 15 1 6 HELIX 12 AB3 HIS B 41 CYS B 44 5 4 HELIX 13 AB4 TYR B 54 LYS B 61 1 8 HELIX 14 AB5 SER B 62 HIS B 64 5 3 HELIX 15 AB6 ILE B 200 ASN B 214 1 15 HELIX 16 AB7 THR B 226 TYR B 237 1 12 HELIX 17 AB8 THR B 243 LEU B 250 1 8 HELIX 18 AB9 LEU B 250 GLY B 258 1 9 HELIX 19 AC1 ALA B 260 GLY B 275 1 16 HELIX 20 AC2 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 GLY A 29 N VAL A 18 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 87 N CYS A 38 SHEET 7 AA1 7 VAL A 77 GLN A 83 -1 N GLN A 83 O VAL A 86 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 PHE B 66 ALA B 70 -1 N ALA B 70 O VAL B 73 SHEET 3 AA4 7 MET B 17 CYS B 22 -1 N THR B 21 O LEU B 67 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 VAL B 35 N LEU B 32 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 SG CYS A 145 C22 ALD A 401 1555 1555 1.79 LINK O ASN A 221 NA NA A 413 1555 1555 2.59 LINK OD1 ASN A 221 NA NA A 413 1555 1555 2.18 LINK O PHE A 223 NA NA A 413 1555 1555 2.40 LINK O ASP A 263 NA NA A 413 1555 1555 2.79 LINK OD1 ASP A 263 NA NA A 413 1555 1555 2.16 LINK NA NA A 413 O HOH A 503 1555 1555 2.39 LINK O ASN B 221 NA NA B 503 1555 1555 2.68 LINK OD1 ASN B 221 NA NA B 503 1555 1555 2.16 LINK O PHE B 223 NA NA B 503 1555 1555 2.27 LINK O ASP B 263 NA NA B 503 1555 1555 2.73 LINK OD1 ASP B 263 NA NA B 503 1555 1555 2.04 LINK NA NA B 503 O HOH B 606 1555 1555 2.49 CRYST1 68.366 99.351 102.801 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 0.014627 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010065 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009728 0.00000