HEADER VIRAL PROTEIN 22-DEC-20 7BE7 TITLE CRYSTAL STRUCTURE OF MG-132 COVALENTLY BOUND TO THE MAIN PROTEASE TITLE 2 (3CLPRO/MPRO) OF SARS-COV-2. COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3C-LIKE PROTEINASE; 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_COMMON: 2019-NCOV, SARS-COV-2; SOURCE 5 ORGANISM_TAXID: 2697049; SOURCE 6 GENE: REP, 1A-1B; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS SARS-COV-2, MPRO, 3CLPRO, EXSCALATE4COV, DRUG DISCOVERY, ELETTRA, KEYWDS 2 VIRAL PROTEIN, MG-132 EXPDTA X-RAY DIFFRACTION AUTHOR E.COSTANZI,N.DEMITRI,B.GIABBAI,P.STORICI REVDAT 3 31-JAN-24 7BE7 1 REMARK REVDAT 2 24-NOV-21 7BE7 1 COMPND SOURCE JRNL REVDAT 1 03-MAR-21 7BE7 0 JRNL AUTH E.COSTANZI,M.KUZIKOV,F.ESPOSITO,S.ALBANI,N.DEMITRI, JRNL AUTH 2 B.GIABBAI,M.CAMASTA,E.TRAMONTANO,G.ROSSETTI,A.ZALIANI, JRNL AUTH 3 P.STORICI JRNL TITL STRUCTURAL AND BIOCHEMICAL ANALYSIS OF THE DUAL INHIBITION JRNL TITL 2 OF MG-132 AGAINST SARS-COV-2 MAIN PROTEASE (MPRO/3CLPRO) AND JRNL TITL 3 HUMAN CATHEPSIN-L. JRNL REF INT J MOL SCI V. 22 2021 JRNL REFN ESSN 1422-0067 JRNL PMID 34769210 JRNL DOI 10.3390/IJMS222111779 REMARK 2 REMARK 2 RESOLUTION. 1.68 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19_4085 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) : 1.68 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 80087 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 3972 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 45.8400 - 5.1000 0.98 2931 113 0.1807 0.1904 REMARK 3 2 5.1000 - 4.0500 0.99 2793 152 0.1309 0.1453 REMARK 3 3 4.0500 - 3.5400 0.99 2752 126 0.1482 0.1832 REMARK 3 4 3.5400 - 3.2100 1.00 2766 159 0.1649 0.2018 REMARK 3 5 3.2100 - 2.9800 1.00 2724 152 0.1706 0.2003 REMARK 3 6 2.9800 - 2.8100 1.00 2735 135 0.1838 0.2013 REMARK 3 7 2.8100 - 2.6700 1.00 2726 150 0.1760 0.1990 REMARK 3 8 2.6700 - 2.5500 1.00 2759 121 0.1759 0.2124 REMARK 3 9 2.5500 - 2.4500 1.00 2732 143 0.1693 0.2073 REMARK 3 10 2.4500 - 2.3700 1.00 2734 102 0.1631 0.1739 REMARK 3 11 2.3700 - 2.2900 1.00 2697 158 0.1654 0.1805 REMARK 3 12 2.2900 - 2.2300 1.00 2728 134 0.1668 0.1816 REMARK 3 13 2.2300 - 2.1700 1.00 2692 141 0.1731 0.2141 REMARK 3 14 2.1700 - 2.1200 1.00 2691 148 0.1703 0.1996 REMARK 3 15 2.1200 - 2.0700 1.00 2700 150 0.1785 0.1937 REMARK 3 16 2.0700 - 2.0200 1.00 2694 154 0.1847 0.2157 REMARK 3 17 2.0200 - 1.9800 1.00 2709 139 0.1894 0.2114 REMARK 3 18 1.9800 - 1.9500 1.00 2689 152 0.1907 0.2359 REMARK 3 19 1.9500 - 1.9100 1.00 2676 139 0.2032 0.2120 REMARK 3 20 1.9100 - 1.8800 1.00 2694 149 0.2095 0.2544 REMARK 3 21 1.8800 - 1.8500 1.00 2657 163 0.2240 0.2506 REMARK 3 22 1.8500 - 1.8200 1.00 2718 134 0.2367 0.2570 REMARK 3 23 1.8200 - 1.7900 1.00 2673 135 0.2473 0.2570 REMARK 3 24 1.7900 - 1.7700 1.00 2695 133 0.2647 0.2785 REMARK 3 25 1.7700 - 1.7400 1.00 2696 124 0.2778 0.2847 REMARK 3 26 1.7400 - 1.7200 1.00 2676 162 0.2838 0.3033 REMARK 3 27 1.7200 - 1.7000 1.00 2691 144 0.2951 0.3340 REMARK 3 28 1.7000 - 1.6800 1.00 2687 160 0.3091 0.3334 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) : 0.182 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.815 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.11 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.53 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 4968 REMARK 3 ANGLE : 0.901 6726 REMARK 3 CHIRALITY : 0.048 754 REMARK 3 PLANARITY : 0.007 872 REMARK 3 DIHEDRAL : 14.743 1794 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.4227 -6.7018 -18.6270 REMARK 3 T TENSOR REMARK 3 T11: 0.1893 T22: 0.1582 REMARK 3 T33: 0.1934 T12: 0.0243 REMARK 3 T13: -0.0015 T23: 0.0087 REMARK 3 L TENSOR REMARK 3 L11: 1.7203 L22: 0.7460 REMARK 3 L33: 2.3545 L12: -0.0522 REMARK 3 L13: -0.2302 L23: -0.0528 REMARK 3 S TENSOR REMARK 3 S11: 0.0081 S12: -0.1281 S13: 0.0005 REMARK 3 S21: -0.0085 S22: -0.0341 S23: -0.0322 REMARK 3 S31: 0.0548 S32: 0.2766 S33: 0.0301 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 91 ) REMARK 3 ORIGIN FOR THE GROUP (A): 33.2805 -5.3982 -24.9445 REMARK 3 T TENSOR REMARK 3 T11: 0.2048 T22: 0.3990 REMARK 3 T33: 0.2724 T12: 0.0097 REMARK 3 T13: -0.0032 T23: 0.0495 REMARK 3 L TENSOR REMARK 3 L11: 1.8060 L22: 0.6114 REMARK 3 L33: 2.2678 L12: 0.1599 REMARK 3 L13: -0.4187 L23: -0.6479 REMARK 3 S TENSOR REMARK 3 S11: -0.0526 S12: -0.2291 S13: 0.0750 REMARK 3 S21: 0.0694 S22: -0.1474 S23: -0.1774 REMARK 3 S31: -0.0674 S32: 0.7337 S33: 0.1722 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 92 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.1966 -15.7319 -21.4217 REMARK 3 T TENSOR REMARK 3 T11: 0.2081 T22: 0.1476 REMARK 3 T33: 0.2259 T12: 0.0467 REMARK 3 T13: 0.0159 T23: 0.0270 REMARK 3 L TENSOR REMARK 3 L11: 1.4970 L22: 1.3673 REMARK 3 L33: 3.3017 L12: -0.6878 REMARK 3 L13: 1.2444 L23: -0.8933 REMARK 3 S TENSOR REMARK 3 S11: -0.0488 S12: -0.0298 S13: -0.1348 REMARK 3 S21: 0.0072 S22: -0.0392 S23: -0.0425 REMARK 3 S31: 0.2230 S32: 0.3314 S33: 0.0321 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 166 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.7258 -4.5670 -23.4221 REMARK 3 T TENSOR REMARK 3 T11: 0.1778 T22: 0.1292 REMARK 3 T33: 0.1953 T12: -0.0015 REMARK 3 T13: -0.0021 T23: 0.0036 REMARK 3 L TENSOR REMARK 3 L11: 1.9881 L22: 0.3982 REMARK 3 L33: 2.5715 L12: 0.0891 REMARK 3 L13: 0.1360 L23: 0.2538 REMARK 3 S TENSOR REMARK 3 S11: 0.0019 S12: -0.0595 S13: 0.0100 REMARK 3 S21: -0.0265 S22: 0.0054 S23: 0.0510 REMARK 3 S31: 0.0545 S32: 0.0560 S33: -0.0091 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 167 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.3709 -3.0365 -33.6981 REMARK 3 T TENSOR REMARK 3 T11: 0.1870 T22: 0.1654 REMARK 3 T33: 0.1861 T12: -0.0020 REMARK 3 T13: -0.0058 T23: 0.0258 REMARK 3 L TENSOR REMARK 3 L11: 2.3989 L22: 0.2106 REMARK 3 L33: 0.4348 L12: 0.4799 REMARK 3 L13: -0.3260 L23: 0.0911 REMARK 3 S TENSOR REMARK 3 S11: -0.0178 S12: 0.2701 S13: 0.1572 REMARK 3 S21: -0.0367 S22: 0.0471 S23: 0.0310 REMARK 3 S31: -0.0580 S32: -0.0276 S33: -0.0373 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.4194 -6.7697 -34.0861 REMARK 3 T TENSOR REMARK 3 T11: 0.1634 T22: 0.2256 REMARK 3 T33: 0.2017 T12: -0.0025 REMARK 3 T13: -0.0055 T23: -0.0082 REMARK 3 L TENSOR REMARK 3 L11: 2.2950 L22: 1.6238 REMARK 3 L33:1.6918711 L12: -0.2948 REMARK 3 L13: 0.1758 L23: -0.4658 REMARK 3 S TENSOR REMARK 3 S11: -0.0225 S12: 0.1644 S13: -0.0162 REMARK 3 S21: 0.0043 S22: 0.0075 S23: 0.1199 REMARK 3 S31: -0.0192 S32: -0.1629 S33: -0.0012 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 22 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.0143 -6.8165 -8.3643 REMARK 3 T TENSOR REMARK 3 T11: 0.2460 T22: 0.1951 REMARK 3 T33: 0.2450 T12: -0.0114 REMARK 3 T13: 0.0195 T23: 0.0182 REMARK 3 L TENSOR REMARK 3 L11: 0.9964 L22: 1.6875 REMARK 3 L33: 2.2474 L12: 0.2723 REMARK 3 L13: 0.0127 L23: -0.9323 REMARK 3 S TENSOR REMARK 3 S11: 0.0582 S12: 0.0300 S13: 0.0668 REMARK 3 S21: -0.1661 S22: 0.0027 S23: 0.1851 REMARK 3 S31: 0.3022 S32: -0.2024 S33: 0.0084 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 23 THROUGH 180 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7085 -9.8734 1.7904 REMARK 3 T TENSOR REMARK 3 T11: 0.1775 T22: 0.2764 REMARK 3 T33: 0.1798 T12: -0.0760 REMARK 3 T13: 0.0282 T23: 0.0299 REMARK 3 L TENSOR REMARK 3 L11: 2.1724 L22: 1.7170 REMARK 3 L33: 3.9160 L12: -0.7389 REMARK 3 L13: 1.2742 L23: -0.6167 REMARK 3 S TENSOR REMARK 3 S11: 0.0377 S12: -0.3618 S13: -0.1797 REMARK 3 S21: 0.0304 S22: 0.0851 S23: 0.1722 REMARK 3 S31: 0.3050 S32: -0.6904 S33: -0.0200 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 181 THROUGH 226 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.8165 12.2176 -12.9842 REMARK 3 T TENSOR REMARK 3 T11: 0.2387 T22: 0.2295 REMARK 3 T33: 0.1791 T12: 0.0579 REMARK 3 T13: 0.0054 T23: -0.0378 REMARK 3 L TENSOR REMARK 3 L11: 0.7519 L22: 1.2965 REMARK 3 L33: 1.8681 L12: -0.3983 REMARK 3 L13: 0.2164 L23: -1.2268 REMARK 3 S TENSOR REMARK 3 S11: -0.0469 S12: 0.0979 S13: 0.0199 REMARK 3 S21: 0.1015 S22: 0.1542 S23: 0.0036 REMARK 3 S31: -0.3386 S32: -0.5935 S33: -0.0089 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 227 THROUGH 305 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.5098 18.0129 -15.2582 REMARK 3 T TENSOR REMARK 3 T11: 0.4462 T22: 0.2185 REMARK 3 T33: 0.2415 T12: 0.0502 REMARK 3 T13: 0.0110 T23: -0.0295 REMARK 3 L TENSOR REMARK 3 L11: 1.7358 L22: 1.9186 REMARK 3 L33: 2.9881 L12: -0.1809 REMARK 3 L13: -0.5722 L23: -1.1314 REMARK 3 S TENSOR REMARK 3 S11: -0.0650 S12: 0.0269 S13: 0.0705 REMARK 3 S21: 0.3152 S22: 0.0454 S23: 0.1281 REMARK 3 S31: -0.8497 S32: -0.1902 S33: 0.0281 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 7BE7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-DEC-20. REMARK 100 THE DEPOSITION ID IS D_1292113194. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-DEC-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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) : 1.0000 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 : 80180 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.680 REMARK 200 RESOLUTION RANGE LOW (A) : 99.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.68 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.71 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: 7BB2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.12M ETHYLENE GLYCOLS (DIETHYLENE REMARK 280 GLYCOL; TRIETHYLENE GLYCOL; TETRAETHYLENE GLYCOL; PENTAETHYLENE REMARK 280 GLYCOL) 0.1M TRIS/BICINE PH 8.5, 20% V/V PEG 500 MME; 10 % W/V REMARK 280 PEG 20000, VAPOR 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 33.94900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.68750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.62000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.68750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.94900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.62000 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: 8100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 21.0 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 VAL A 303 REMARK 465 THR A 304 REMARK 465 PHE A 305 REMARK 465 GLN A 306 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 -130.27 54.84 REMARK 500 ASP A 48 56.39 -117.09 REMARK 500 ASN A 84 -123.84 53.24 REMARK 500 TYR A 154 -141.80 75.35 REMARK 500 ASP B 33 -130.64 51.79 REMARK 500 HIS B 41 0.26 -69.67 REMARK 500 ASP B 48 27.00 -150.08 REMARK 500 ASN B 84 -124.83 51.98 REMARK 500 TYR B 154 -104.15 69.19 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 744 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A 745 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH A 746 DISTANCE = 6.44 ANGSTROMS REMARK 525 HOH A 747 DISTANCE = 6.76 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 707 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 221 O REMARK 620 2 ASN B 221 OD1 73.5 REMARK 620 3 PHE B 223 O 118.8 98.0 REMARK 620 4 ASP B 263 O 150.1 113.8 89.7 REMARK 620 5 ASP B 263 OD1 99.5 165.3 96.7 65.9 REMARK 620 6 HOH B 826 O 79.0 93.9 160.8 71.7 71.8 REMARK 620 N 1 2 3 4 5 REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE INHIBITOR 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 ALD B 702 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: PHQ LEU LEU DCL REMARK 630 DETAILS: NULL DBREF 7BE7 A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 7BE7 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 PEG A 403 17 HET EDO A 404 10 HET EDO A 405 10 HET EDO A 406 10 HET EDO A 407 10 HET EDO A 408 10 HET EDO A 409 10 HET EDO A 410 10 HET EDO B 701 10 HET ALD B 702 76 HET EDO B 703 10 HET EDO B 704 10 HET EDO B 705 10 HET EDO B 706 10 HET NA B 707 1 HET CL B 708 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 2(C26 H43 N3 O5) FORMUL 4 EDO 13(C2 H6 O2) FORMUL 5 PEG C4 H10 O3 FORMUL 19 NA NA 1+ FORMUL 20 CL CL 1- FORMUL 21 HOH *399(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 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 MET A 235 1 10 HELIX 7 AA7 LYS A 236 ASN A 238 5 3 HELIX 8 AA8 THR A 243 LEU A 250 1 8 HELIX 9 AA9 LEU A 250 GLY A 258 1 9 HELIX 10 AB1 ALA A 260 GLY A 275 1 16 HELIX 11 AB2 THR A 292 GLY A 302 1 11 HELIX 12 AB3 SER B 10 GLY B 15 1 6 HELIX 13 AB4 HIS B 41 CYS B 44 5 4 HELIX 14 AB5 ASN B 53 ARG B 60 1 8 HELIX 15 AB6 SER B 62 HIS B 64 5 3 HELIX 16 AB7 ILE B 200 ASN B 214 1 15 HELIX 17 AB8 THR B 226 TYR B 237 1 12 HELIX 18 AB9 THR B 243 GLY B 258 1 16 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 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 87 N CYS A 38 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 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 ILE B 78 O LYS B 90 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 1.78 LINK SG CYS B 145 C22 ALD B 702 1555 1555 1.76 LINK O ASN B 221 NA NA B 707 1555 1555 2.61 LINK OD1 ASN B 221 NA NA B 707 1555 1555 2.35 LINK O PHE B 223 NA NA B 707 1555 1555 2.26 LINK O ASP B 263 NA NA B 707 1555 1555 2.91 LINK OD1 ASP B 263 NA NA B 707 1555 1555 2.05 LINK NA NA B 707 O HOH B 826 1555 1555 2.55 CRYST1 67.898 99.240 103.375 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 0.014728 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010077 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009674 0.00000