HEADER VIRAL PROTEIN 23-MAY-23 8P5A TITLE CRYSTAL STRUCTURE OF THE MAIN PROTEASE (3CLPRO/MPRO) OF SARS-COV-2 TITLE 2 OBTAINED IN PRESENCE OF 5 MILLIMOLAR X77 ENANTIOMER R. 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 8P5A 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. 1.66 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) : 1.66 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.32 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 83577 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) : 0.166 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.160 REMARK 3 FREE R VALUE TEST SET COUNT : 4313 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 49.3200 - 5.1600 0.99 2846 155 0.1833 0.2252 REMARK 3 2 5.1600 - 4.0900 1.00 2731 176 0.1291 0.1463 REMARK 3 3 4.0900 - 3.5800 1.00 2705 142 0.1444 0.1643 REMARK 3 4 3.5800 - 3.2500 1.00 2680 148 0.1566 0.1678 REMARK 3 5 3.2500 - 3.0200 1.00 2680 157 0.1614 0.1953 REMARK 3 6 3.0200 - 2.8400 1.00 2682 140 0.1614 0.1869 REMARK 3 7 2.8400 - 2.7000 1.00 2664 143 0.1580 0.1773 REMARK 3 8 2.7000 - 2.5800 1.00 2647 144 0.1618 0.1640 REMARK 3 9 2.5800 - 2.4800 1.00 2675 133 0.1588 0.1714 REMARK 3 10 2.4800 - 2.3900 1.00 2639 171 0.1595 0.1878 REMARK 3 11 2.3900 - 2.3200 1.00 2626 152 0.1504 0.1806 REMARK 3 12 2.3200 - 2.2500 1.00 2626 145 0.1507 0.1824 REMARK 3 13 2.2500 - 2.1900 1.00 2656 142 0.1488 0.1728 REMARK 3 14 2.1900 - 2.1400 1.00 2652 130 0.1497 0.1697 REMARK 3 15 2.1400 - 2.0900 1.00 2619 138 0.1550 0.1865 REMARK 3 16 2.0900 - 2.0500 1.00 2645 127 0.1627 0.2194 REMARK 3 17 2.0500 - 2.0100 1.00 2623 139 0.1689 0.2054 REMARK 3 18 2.0100 - 1.9700 1.00 2625 144 0.1842 0.2330 REMARK 3 19 1.9700 - 1.9300 0.99 2615 143 0.1852 0.2031 REMARK 3 20 1.9300 - 1.9000 0.99 2628 132 0.1929 0.2044 REMARK 3 21 1.9000 - 1.8700 0.99 2636 120 0.1980 0.2136 REMARK 3 22 1.8700 - 1.8400 0.99 2618 157 0.2057 0.2083 REMARK 3 23 1.8400 - 1.8100 0.99 2591 140 0.2126 0.2563 REMARK 3 24 1.8100 - 1.7900 0.99 2610 137 0.2116 0.2871 REMARK 3 25 1.7900 - 1.7600 0.99 2603 142 0.2284 0.2266 REMARK 3 26 1.7600 - 1.7400 0.99 2574 160 0.2487 0.2434 REMARK 3 27 1.7400 - 1.7200 0.99 2613 129 0.2439 0.2784 REMARK 3 28 1.7200 - 1.7000 0.99 2572 152 0.2826 0.3042 REMARK 3 29 1.7000 - 1.6800 0.99 2586 137 0.2797 0.3190 REMARK 3 30 1.6800 - 1.6600 0.99 2597 138 0.2978 0.3215 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.849 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.51 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.55 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 4921 REMARK 3 ANGLE : 1.153 6675 REMARK 3 CHIRALITY : 0.057 745 REMARK 3 PLANARITY : 0.010 865 REMARK 3 DIHEDRAL : 13.991 1795 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 66 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.6250 -4.7931 -22.7774 REMARK 3 T TENSOR REMARK 3 T11: 0.1936 T22: 0.2715 REMARK 3 T33: 0.2286 T12: 0.0124 REMARK 3 T13: -0.0111 T23: -0.0024 REMARK 3 L TENSOR REMARK 3 L11: 2.4612 L22: 0.2970 REMARK 3 L33: 1.7019 L12: -0.1667 REMARK 3 L13: -1.3646 L23: 0.0608 REMARK 3 S TENSOR REMARK 3 S11: -0.0415 S12: -0.1076 S13: 0.1237 REMARK 3 S21: 0.0025 S22: 0.0477 S23: -0.0451 REMARK 3 S31: -0.0220 S32: 0.2921 S33: 0.0295 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 67 THROUGH 91 ) REMARK 3 ORIGIN FOR THE GROUP (A): 30.7476 -9.9692 -19.3760 REMARK 3 T TENSOR REMARK 3 T11: 0.1796 T22: 0.3466 REMARK 3 T33: 0.2852 T12: 0.0651 REMARK 3 T13: 0.0125 T23: 0.0322 REMARK 3 L TENSOR REMARK 3 L11: 3.3421 L22: 1.4442 REMARK 3 L33: 5.1244 L12: -0.3306 REMARK 3 L13: -0.6636 L23: -0.0810 REMARK 3 S TENSOR REMARK 3 S11: -0.1879 S12: -0.4306 S13: -0.0521 REMARK 3 S21: 0.1239 S22: -0.0427 S23: -0.1760 REMARK 3 S31: 0.1515 S32: 0.5147 S33: 0.0662 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 92 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.0707 -15.9945 -21.3221 REMARK 3 T TENSOR REMARK 3 T11: 0.2303 T22: 0.1827 REMARK 3 T33: 0.2361 T12: 0.0454 REMARK 3 T13: 0.0561 T23: 0.0166 REMARK 3 L TENSOR REMARK 3 L11: 4.3155 L22: 2.0277 REMARK 3 L33: 4.2071 L12: -1.5039 REMARK 3 L13: 2.2429 L23: -1.2789 REMARK 3 S TENSOR REMARK 3 S11: -0.0610 S12: -0.1485 S13: -0.4664 REMARK 3 S21: 0.0589 S22: 0.0403 S23: 0.0848 REMARK 3 S31: 0.3201 S32: 0.2310 S33: -0.0171 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 166 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.5126 -4.7742 -23.3195 REMARK 3 T TENSOR REMARK 3 T11: 0.1435 T22: 0.1481 REMARK 3 T33: 0.1852 T12: -0.0020 REMARK 3 T13: 0.0012 T23: -0.0143 REMARK 3 L TENSOR REMARK 3 L11: 3.2774 L22: 1.2803 REMARK 3 L33: 3.4139 L12: -0.1458 REMARK 3 L13: -0.2386 L23: 0.0690 REMARK 3 S TENSOR REMARK 3 S11: -0.0244 S12: -0.0716 S13: 0.0705 REMARK 3 S21: 0.0108 S22: -0.0010 S23: -0.0007 REMARK 3 S31: 0.0263 S32: 0.0168 S33: 0.0323 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 167 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.3929 -3.1826 -33.5595 REMARK 3 T TENSOR REMARK 3 T11: 0.1960 T22: 0.2144 REMARK 3 T33: 0.2046 T12: -0.0009 REMARK 3 T13: -0.0110 T23: 0.0142 REMARK 3 L TENSOR REMARK 3 L11: 4.2564 L22: 0.4551 REMARK 3 L33: 0.9551 L12: 0.1858 REMARK 3 L13: -0.0779 L23: 0.1152 REMARK 3 S TENSOR REMARK 3 S11: -0.0550 S12: 0.4759 S13: 0.2023 REMARK 3 S21: -0.0826 S22: 0.0198 S23: -0.0441 REMARK 3 S31: -0.0635 S32: 0.0285 S33: 0.0242 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.5034 -7.0297 -33.8688 REMARK 3 T TENSOR REMARK 3 T11: 0.1720 T22: 0.2275 REMARK 3 T33: 0.1973 T12: -0.0089 REMARK 3 T13: -0.0058 T23: -0.0432 REMARK 3 L TENSOR REMARK 3 L11: 1.3590 L22: 1.2172 REMARK 3 L33: 1.8949 L12: -0.3809 REMARK 3 L13: 0.8895 L23: -0.7584 REMARK 3 S TENSOR REMARK 3 S11: 0.0293 S12: -0.0422 S13: -0.0667 REMARK 3 S21: 0.0211 S22: -0.0139 S23: 0.0878 REMARK 3 S31: -0.0176 S32: -0.0621 S33: -0.0165 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.1994 -10.8557 -1.7933 REMARK 3 T TENSOR REMARK 3 T11: 0.2271 T22: 0.1247 REMARK 3 T33: 0.2272 T12: -0.0033 REMARK 3 T13: 0.0110 T23: 0.0167 REMARK 3 L TENSOR REMARK 3 L11: 2.1858 L22: 0.9433 REMARK 3 L33: 3.0634 L12: -0.1836 REMARK 3 L13: -0.6412 L23: -0.7157 REMARK 3 S TENSOR REMARK 3 S11: -0.0558 S12: -0.1723 S13: -0.3330 REMARK 3 S21: -0.0024 S22: -0.0520 S23: -0.0380 REMARK 3 S31: 0.3028 S32: 0.0907 S33: 0.0540 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 44 THROUGH 91 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.0952 -17.8627 9.8355 REMARK 3 T TENSOR REMARK 3 T11: 0.3989 T22: 0.3369 REMARK 3 T33: 0.4396 T12: -0.0822 REMARK 3 T13: 0.0085 T23: 0.1664 REMARK 3 L TENSOR REMARK 3 L11: 2.2100 L22: 1.6929 REMARK 3 L33: 2.8863 L12: -0.6041 REMARK 3 L13: -0.4273 L23: -0.0923 REMARK 3 S TENSOR REMARK 3 S11: -0.0258 S12: -0.4165 S13: -0.8755 REMARK 3 S21: 0.2115 S22: 0.0324 S23: 0.2535 REMARK 3 S31: 0.7094 S32: -0.4150 S33: 0.0561 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 92 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.3289 -3.8244 3.6582 REMARK 3 T TENSOR REMARK 3 T11: 0.1650 T22: 0.2159 REMARK 3 T33: 0.1663 T12: -0.0165 REMARK 3 T13: -0.0018 T23: 0.0145 REMARK 3 L TENSOR REMARK 3 L11: 3.7855 L22: 2.5901 REMARK 3 L33: 4.0654 L12: -1.4585 REMARK 3 L13: 0.4411 L23: -1.2803 REMARK 3 S TENSOR REMARK 3 S11: -0.1228 S12: -0.4728 S13: 0.0741 REMARK 3 S21: 0.0682 S22: 0.0599 S23: -0.3017 REMARK 3 S31: 0.0015 S32: 0.2964 S33: 0.1113 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 111 THROUGH 200 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.4893 -2.9692 -4.4352 REMARK 3 T TENSOR REMARK 3 T11: 0.1651 T22: 0.1479 REMARK 3 T33: 0.1499 T12: -0.0177 REMARK 3 T13: 0.0007 T23: 0.0119 REMARK 3 L TENSOR REMARK 3 L11: 2.3036 L22: 1.6461 REMARK 3 L33: 3.0232 L12: -0.5554 REMARK 3 L13: -0.3787 L23: -0.4221 REMARK 3 S TENSOR REMARK 3 S11: 0.0570 S12: 0.0171 S13: -0.1054 REMARK 3 S21: -0.0226 S22: -0.0278 S23: 0.0250 REMARK 3 S31: 0.0428 S32: -0.2048 S33: -0.0342 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 201 THROUGH 243 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.8053 21.5266 -16.9454 REMARK 3 T TENSOR REMARK 3 T11: 0.3495 T22: 0.1788 REMARK 3 T33: 0.1999 T12: 0.0614 REMARK 3 T13: 0.0786 T23: 0.0049 REMARK 3 L TENSOR REMARK 3 L11: 1.6361 L22: 3.6967 REMARK 3 L33: 1.7409 L12: 0.3009 REMARK 3 L13: 0.0181 L23: -1.8285 REMARK 3 S TENSOR REMARK 3 S11: 0.1636 S12: 0.0419 S13: 0.2827 REMARK 3 S21: 0.3690 S22: 0.0075 S23: 0.0697 REMARK 3 S31: -0.6445 S32: -0.3253 S33: -0.1849 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 244 THROUGH 305 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.3295 16.8710 -16.6435 REMARK 3 T TENSOR REMARK 3 T11: 0.3863 T22: 0.2454 REMARK 3 T33: 0.2614 T12: -0.0370 REMARK 3 T13: 0.0136 T23: -0.0160 REMARK 3 L TENSOR REMARK 3 L11: 2.0665 L22: 2.8583 REMARK 3 L33: 2.0267 L12: -1.0627 REMARK 3 L13: -0.5049 L23: -1.4208 REMARK 3 S TENSOR REMARK 3 S11: -0.0230 S12: 0.1692 S13: 0.2205 REMARK 3 S21: 0.1868 S22: -0.0115 S23: -0.2128 REMARK 3 S31: -0.6425 S32: 0.2172 S33: -0.0036 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 8P5A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-MAY-23. REMARK 100 THE DEPOSITION ID IS D_1292130705. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-JUN-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : 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) : 0.9718 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 : 83674 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.660 REMARK 200 RESOLUTION RANGE LOW (A) : 103.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 11.00 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.66 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 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 (%): 52.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.12 M DIETHYLENE GLYCOL 0.12M REMARK 280 TRIETHYLENE GLYCOL 0.12M TETRAETHYLENE GLYCOL 0.12M REMARK 280 PENTAETHYLENE GLYCOL, 0.1 M TRIS/BICINE PH 8.5, 20% V/V ETHYLENE REMARK 280 GLYCOL, 10% W/V PEG 8000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 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 33.78400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.95950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.12350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.95950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.78400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.12350 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: 5620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 10.0 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 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 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 -129.40 51.85 REMARK 500 ASN A 51 59.91 -141.84 REMARK 500 ASN A 84 -124.00 51.59 REMARK 500 ASP B 33 -131.22 50.81 REMARK 500 ASN B 84 -128.99 55.44 REMARK 500 TYR B 154 -105.08 59.74 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 785 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A 786 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH A 787 DISTANCE = 6.20 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 404 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 221 O REMARK 620 2 ASN B 221 OD1 74.3 REMARK 620 3 PHE B 223 O 116.2 93.6 REMARK 620 4 ASP B 263 O 150.1 118.7 90.9 REMARK 620 5 ASP B 263 OD1 97.5 168.2 97.7 64.7 REMARK 620 6 HOH B 507 O 79.9 92.8 163.8 72.9 77.2 REMARK 620 N 1 2 3 4 5 DBREF 8P5A A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 8P5A 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 EDO A 401 10 HET EDO A 402 10 HET EDO A 403 10 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 CL A 409 1 HET X77 A 410 66 HET EDO B 401 10 HET EDO B 402 10 HET DMS B 403 10 HET NA B 404 1 HET CL B 405 1 HET X77 B 406 66 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 DMS DIMETHYL SULFOXIDE HETNAM NA SODIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO 10(C2 H6 O2) FORMUL 11 CL 2(CL 1-) FORMUL 12 X77 2(C27 H33 N5 O2) FORMUL 15 DMS C2 H6 O S FORMUL 16 NA NA 1+ FORMUL 19 HOH *471(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 SER A 62 HIS A 64 5 3 HELIX 5 AA5 ILE A 152 CYS A 156 5 5 HELIX 6 AA6 ILE A 200 ASN A 214 1 15 HELIX 7 AA7 THR A 226 MET A 235 1 10 HELIX 8 AA8 LYS A 236 ASN A 238 5 3 HELIX 9 AA9 THR A 243 LEU A 250 1 8 HELIX 10 AB1 LEU A 250 GLY A 258 1 9 HELIX 11 AB2 ALA A 260 GLY A 275 1 16 HELIX 12 AB3 THR A 292 SER A 301 1 10 HELIX 13 AB4 SER B 10 GLY B 15 1 6 HELIX 14 AB5 HIS B 41 CYS B 44 5 4 HELIX 15 AB6 ASN B 53 LYS B 61 1 9 HELIX 16 AB7 SER B 62 HIS B 64 5 3 HELIX 17 AB8 ILE B 200 ASN B 214 1 15 HELIX 18 AB9 THR B 226 TYR B 237 1 12 HELIX 19 AC1 THR B 243 GLY B 258 1 16 HELIX 20 AC2 ALA B 260 GLY B 275 1 16 HELIX 21 AC3 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 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 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 O ASN B 221 NA NA B 404 1555 1555 2.57 LINK OD1 ASN B 221 NA NA B 404 1555 1555 2.33 LINK O PHE B 223 NA NA B 404 1555 1555 2.24 LINK O ASP B 263 NA NA B 404 1555 1555 3.03 LINK OD1 ASP B 263 NA NA B 404 1555 1555 2.12 LINK NA NA B 404 O HOH B 507 1555 1555 2.46 CRYST1 67.568 100.247 103.919 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 0.014800 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009975 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009623 0.00000