HEADER VIRAL PROTEIN 28-JAN-21 7NBY TITLE CRYSTAL STRUCTURE OF SU3327 (HALICIN) COVALENTLY BOUND TO THE MAIN TITLE 2 PROTEASE (3CLPRO/MPRO) OF SARS-COV-2. COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAIN PROTEASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PP1AB,ORF1AB POLYPROTEIN; COMPND 5 EC: 3.4.19.12,3.4.22.-,3.4.22.69,2.7.7.48,3.6.4.12,3.6.4.13,3.1.13.-, COMPND 6 3.1.-.-,2.1.1.-; 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; 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, HALICIN, SU3327 EXPDTA X-RAY DIFFRACTION AUTHOR E.COSTANZI,N.DEMITRI,B.GIABBAI,P.STORICI REVDAT 2 31-JAN-24 7NBY 1 REMARK REVDAT 1 03-MAR-21 7NBY 0 JRNL AUTH E.COSTANZI,N.DEMITRI,B.GIABBAI,P.STORICI JRNL TITL CRYSTAL STRUCTURE OF SU3327 (HALICIN) COVALENTLY BOUND TO JRNL TITL 2 THE MAIN PROTEASE (3CLPRO/MPRO) OF SARS-COV-2. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.93 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.1_4122 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) : 1.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.03 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 53915 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.130 REMARK 3 FREE R VALUE TEST SET COUNT : 2766 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 46.0300 - 5.2400 0.98 2707 127 0.1653 0.1455 REMARK 3 2 5.2400 - 4.1600 0.99 2607 135 0.1263 0.1455 REMARK 3 3 4.1600 - 3.6300 0.99 2601 130 0.1433 0.1680 REMARK 3 4 3.6300 - 3.3000 1.00 2584 135 0.1662 0.1990 REMARK 3 5 3.3000 - 3.0600 1.00 2543 157 0.1946 0.2247 REMARK 3 6 3.0600 - 2.8800 1.00 2535 169 0.1843 0.1982 REMARK 3 7 2.8800 - 2.7400 1.00 2581 126 0.1837 0.2229 REMARK 3 8 2.7400 - 2.6200 1.00 2558 123 0.1940 0.2359 REMARK 3 9 2.6200 - 2.5200 1.00 2565 130 0.1748 0.1896 REMARK 3 10 2.5200 - 2.4300 1.00 2529 159 0.1749 0.1981 REMARK 3 11 2.4300 - 2.3600 1.00 2550 126 0.1834 0.2082 REMARK 3 12 2.3600 - 2.2900 1.00 2536 136 0.1825 0.2231 REMARK 3 13 2.2900 - 2.2300 1.00 2530 157 0.1921 0.2386 REMARK 3 14 2.2300 - 2.1700 1.00 2543 128 0.1882 0.2303 REMARK 3 15 2.1700 - 2.1200 1.00 2513 130 0.2085 0.2490 REMARK 3 16 2.1200 - 2.0800 1.00 2572 138 0.2248 0.2606 REMARK 3 17 2.0800 - 2.0400 1.00 2530 129 0.2392 0.2977 REMARK 3 18 2.0400 - 2.0000 1.00 2517 138 0.2486 0.2771 REMARK 3 19 2.0000 - 1.9600 1.00 2500 158 0.2487 0.2677 REMARK 3 20 1.9600 - 1.9300 1.00 2548 135 0.2620 0.3103 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) : 0.201 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.770 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.95 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.76 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 : 0.004 4825 REMARK 3 ANGLE : 0.697 6551 REMARK 3 CHIRALITY : 0.044 729 REMARK 3 PLANARITY : 0.006 858 REMARK 3 DIHEDRAL : 13.558 1695 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 91 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.3046 -6.2939 -21.8742 REMARK 3 T TENSOR REMARK 3 T11: 0.1952 T22: 0.3316 REMARK 3 T33: 0.2284 T12: 0.0213 REMARK 3 T13: -0.0085 T23: 0.0038 REMARK 3 L TENSOR REMARK 3 L11: 1.7185 L22: 0.9864 REMARK 3 L33: 2.4582 L12: -0.1618 REMARK 3 L13: -0.5686 L23: -0.0472 REMARK 3 S TENSOR REMARK 3 S11: -0.0407 S12: -0.0227 S13: 0.0044 REMARK 3 S21: -0.0091 S22: -0.0094 S23: -0.1452 REMARK 3 S31: -0.0084 S32: 0.5029 S33: 0.0398 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 92 THROUGH 200 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.1586 -5.6860 -26.2914 REMARK 3 T TENSOR REMARK 3 T11: 0.1903 T22: 0.2200 REMARK 3 T33: 0.1965 T12: -0.0033 REMARK 3 T13: 0.0007 T23: 0.0098 REMARK 3 L TENSOR REMARK 3 L11: 2.1200 L22: 0.9378 REMARK 3 L33: 2.2788 L12: -0.0118 REMARK 3 L13: -0.0445 L23: -0.0867 REMARK 3 S TENSOR REMARK 3 S11: -0.0384 S12: 0.1479 S13: 0.0538 REMARK 3 S21: 0.0135 S22: 0.0205 S23: 0.0424 REMARK 3 S31: -0.0650 S32: 0.1783 S33: 0.0209 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 201 THROUGH 300 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.6252 -7.2262 -33.3275 REMARK 3 T TENSOR REMARK 3 T11: 0.1992 T22: 0.2360 REMARK 3 T33: 0.2858 T12: 0.0086 REMARK 3 T13: -0.0061 T23: 0.0031 REMARK 3 L TENSOR REMARK 3 L11: 2.2354 L22: 1.9875 REMARK 3 L33: 2.6784 L12: 0.3631 REMARK 3 L13: -0.0618 L23: -0.0659 REMARK 3 S TENSOR REMARK 3 S11: -0.0362 S12: -0.0368 S13: 0.0054 REMARK 3 S21: 0.0697 S22: 0.0054 S23: 0.1739 REMARK 3 S31: -0.0100 S32: -0.0914 S33: 0.0225 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.0583 -10.6724 -1.3006 REMARK 3 T TENSOR REMARK 3 T11: 0.2571 T22: 0.2159 REMARK 3 T33: 0.2302 T12: -0.0119 REMARK 3 T13: 0.0158 T23: 0.0077 REMARK 3 L TENSOR REMARK 3 L11: 1.4835 L22: 1.1483 REMARK 3 L33: 2.0771 L12: -0.6701 REMARK 3 L13: -0.2837 L23: 0.2879 REMARK 3 S TENSOR REMARK 3 S11: -0.0888 S12: -0.0106 S13: -0.1141 REMARK 3 S21: -0.0657 S22: 0.0591 S23: 0.0689 REMARK 3 S31: 0.3672 S32: -0.0805 S33: 0.0438 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 44 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.4413 -20.7749 10.2814 REMARK 3 T TENSOR REMARK 3 T11: 0.7463 T22: 0.5396 REMARK 3 T33: 0.6216 T12: -0.1478 REMARK 3 T13: 0.0854 T23: 0.1095 REMARK 3 L TENSOR REMARK 3 L11: 4.1096 L22: 1.6388 REMARK 3 L33: 2.7327 L12: -0.4407 REMARK 3 L13: -0.6012 L23: -0.3689 REMARK 3 S TENSOR REMARK 3 S11: -0.0323 S12: -0.7545 S13: -1.1675 REMARK 3 S21: 0.7826 S22: -0.0699 S23: 0.6945 REMARK 3 S31: 0.8260 S32: -0.4460 S33: 0.1232 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 77 THROUGH 91 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.0863 -12.9342 12.8082 REMARK 3 T TENSOR REMARK 3 T11: 0.3572 T22: 0.4591 REMARK 3 T33: 0.3085 T12: 0.0508 REMARK 3 T13: 0.0706 T23: 0.0890 REMARK 3 L TENSOR REMARK 3 L11: 5.5227 L22: 5.5707 REMARK 3 L33: 1.6315 L12: -5.0731 REMARK 3 L13: 1.7428 L23: -2.2461 REMARK 3 S TENSOR REMARK 3 S11: -0.3767 S12: -0.8128 S13: -0.0632 REMARK 3 S21: 0.1649 S22: 0.5075 S23: 0.0019 REMARK 3 S31: 0.2689 S32: -0.5684 S33: -0.1279 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 92 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.5855 -3.6127 3.9496 REMARK 3 T TENSOR REMARK 3 T11: 0.2364 T22: 0.2872 REMARK 3 T33: 0.2555 T12: 0.0361 REMARK 3 T13: 0.0271 T23: -0.0212 REMARK 3 L TENSOR REMARK 3 L11: 2.4209 L22: 2.0936 REMARK 3 L33: 2.2274 L12: -1.1151 REMARK 3 L13: 0.3232 L23: -0.5395 REMARK 3 S TENSOR REMARK 3 S11: 0.0478 S12: -0.0451 S13: -0.0132 REMARK 3 S21: 0.0182 S22: -0.1668 S23: 0.0829 REMARK 3 S31: -0.0325 S32: 0.2225 S33: 0.0790 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 111 THROUGH 139 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7013 -3.2648 -8.1954 REMARK 3 T TENSOR REMARK 3 T11: 0.2916 T22: 0.2694 REMARK 3 T33: 0.2881 T12: -0.0062 REMARK 3 T13: 0.0370 T23: 0.0341 REMARK 3 L TENSOR REMARK 3 L11: 1.4192 L22: 1.0981 REMARK 3 L33: 0.8782 L12: -0.7320 REMARK 3 L13: -0.0933 L23: 0.3574 REMARK 3 S TENSOR REMARK 3 S11: -0.0813 S12: 0.0484 S13: -0.0393 REMARK 3 S21: 0.1092 S22: 0.0990 S23: 0.1427 REMARK 3 S31: 0.1577 S32: -0.2823 S33: -0.0291 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 140 THROUGH 180 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.5866 -4.0430 -2.2367 REMARK 3 T TENSOR REMARK 3 T11: 0.2574 T22: 0.2656 REMARK 3 T33: 0.2417 T12: 0.0068 REMARK 3 T13: 0.0338 T23: 0.0026 REMARK 3 L TENSOR REMARK 3 L11: 2.9182 L22: 1.9525 REMARK 3 L33: 3.0624 L12: -1.2121 REMARK 3 L13: 0.1436 L23: -0.5067 REMARK 3 S TENSOR REMARK 3 S11: 0.0247 S12: -0.0612 S13: -0.1184 REMARK 3 S21: -0.0943 S22: -0.1455 S23: 0.0420 REMARK 3 S31: 0.1797 S32: -0.1232 S33: 0.1246 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 181 THROUGH 214 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.0223 7.1048 -8.3199 REMARK 3 T TENSOR REMARK 3 T11: 0.2146 T22: 0.2310 REMARK 3 T33: 0.2972 T12: 0.0138 REMARK 3 T13: 0.0085 T23: -0.0031 REMARK 3 L TENSOR REMARK 3 L11: 1.3977 L22: 1.3935 REMARK 3 L33: 2.7476 L12: 0.1222 REMARK 3 L13: -0.0017 L23: -0.9978 REMARK 3 S TENSOR REMARK 3 S11: 0.0444 S12: 0.0625 S13: -0.0148 REMARK 3 S21: -0.0265 S22: 0.2527 S23: 0.2018 REMARK 3 S31: 0.0384 S32: -0.3847 S33: -0.2381 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 215 THROUGH 237 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.0152 25.3161 -18.5280 REMARK 3 T TENSOR REMARK 3 T11: 0.4344 T22: 0.3173 REMARK 3 T33: 0.3660 T12: 0.0967 REMARK 3 T13: 0.0827 T23: 0.0446 REMARK 3 L TENSOR REMARK 3 L11: 0.9851 L22: 1.6295 REMARK 3 L33: 1.6726 L12: 1.0863 REMARK 3 L13: 0.1154 L23: -0.6936 REMARK 3 S TENSOR REMARK 3 S11: -0.0780 S12: -0.0456 S13: 0.3091 REMARK 3 S21: 0.2064 S22: 0.3291 S23: 0.4114 REMARK 3 S31: -0.2688 S32: -0.2251 S33: -0.2789 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 238 THROUGH 274 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.6154 22.6222 -14.0837 REMARK 3 T TENSOR REMARK 3 T11: 0.4031 T22: 0.2303 REMARK 3 T33: 0.3281 T12: 0.0270 REMARK 3 T13: 0.0376 T23: 0.0088 REMARK 3 L TENSOR REMARK 3 L11: 1.9429 L22: 2.6476 REMARK 3 L33: 2.4614 L12: 0.8640 REMARK 3 L13: -0.4202 L23: 0.4576 REMARK 3 S TENSOR REMARK 3 S11: 0.1176 S12: -0.0538 S13: 0.2161 REMARK 3 S21: 0.2863 S22: 0.0666 S23: 0.0179 REMARK 3 S31: -0.5190 S32: -0.0737 S33: -0.1754 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 275 THROUGH 305 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.0771 10.5625 -17.9394 REMARK 3 T TENSOR REMARK 3 T11: 0.2941 T22: 0.2551 REMARK 3 T33: 0.3319 T12: -0.0287 REMARK 3 T13: 0.0506 T23: 0.0038 REMARK 3 L TENSOR REMARK 3 L11: 2.6820 L22: 1.8183 REMARK 3 L33: 1.4806 L12: 0.0876 REMARK 3 L13: -0.2566 L23: 0.8810 REMARK 3 S TENSOR REMARK 3 S11: -0.1767 S12: -0.0406 S13: -0.4542 REMARK 3 S21: -0.0305 S22: 0.1097 S23: -0.0604 REMARK 3 S31: -0.0794 S32: -0.0154 S33: 0.0262 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 7NBY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-JAN-21. REMARK 100 THE DEPOSITION ID IS D_1292113699. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JAN-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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) : 1.00000 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 : 53997 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.930 REMARK 200 RESOLUTION RANGE LOW (A) : 103.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.93 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.29500 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 (%): 52.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.09M NPS (SODIUM NITRATE, SODIUM REMARK 280 PHOSPHATE DIBASIC, AMMONIUM SULFATE), 0.1M 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 34.11700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.84900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.00750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.84900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.11700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.00750 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: 4110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -55.0 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 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 ASP A 33 -127.85 53.27 REMARK 500 ASN A 84 -122.57 53.23 REMARK 500 TYR A 154 -141.32 67.13 REMARK 500 ASP B 33 -134.02 51.82 REMARK 500 ASN B 84 -124.29 53.87 REMARK 500 TYR B 154 -100.85 63.05 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 722 DISTANCE = 6.30 ANGSTROMS REMARK 525 HOH A 723 DISTANCE = 6.47 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 407 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 221 O REMARK 620 2 ASN B 221 OD1 71.6 REMARK 620 3 PHE B 223 O 108.5 99.4 REMARK 620 4 ASP B 263 O 146.9 132.2 91.4 REMARK 620 5 ASP B 263 OD1 87.2 158.0 81.5 69.5 REMARK 620 6 HOH B 509 O 74.6 102.8 157.4 77.1 76.2 REMARK 620 N 1 2 3 4 5 DBREF 7NBY A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 7NBY 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 U88 A 401 9 HET U88 A 402 9 HET U88 A 403 9 HET NO3 A 404 4 HET NO3 A 405 4 HET U88 A 406 9 HET CL A 407 1 HET U88 B 401 9 HET U88 B 402 9 HET U88 B 403 9 HET SO4 B 404 5 HET NO3 B 405 4 HET U88 B 406 9 HET NA B 407 1 HET CL B 408 1 HETNAM U88 5-NITRO-1,3-THIAZOLE HETNAM NO3 NITRATE ION HETNAM CL CHLORIDE ION HETNAM SO4 SULFATE ION HETNAM NA SODIUM ION HETSYN U88 HALICIN FORMUL 3 U88 8(C3 H2 N2 O2 S) FORMUL 6 NO3 3(N O3 1-) FORMUL 9 CL 2(CL 1-) FORMUL 13 SO4 O4 S 2- FORMUL 16 NA NA 1+ FORMUL 18 HOH *363(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 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 CYS A 300 1 9 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 TYR B 54 ARG B 60 1 7 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 LEU B 250 1 8 HELIX 19 AC1 LEU B 250 GLY B 258 1 9 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 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 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 ASP B 153 O CYS B 156 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 SER B 123 N ALA B 116 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 44 C02 U88 A 401 1555 1555 1.75 LINK SG CYS A 145 C02 U88 A 403 1555 1555 1.75 LINK SG CYS A 156 C02 U88 A 406 1555 1555 1.76 LINK SG CYS A 300 C02 U88 A 402 1555 1555 1.75 LINK SG CYS B 44 C02 U88 B 406 1555 1555 1.75 LINK N ASN B 53 O08 U88 B 406 1555 1555 1.30 LINK SG CYS B 145 C02 U88 B 402 1555 1555 1.75 LINK SG CYS B 156 C02 U88 B 403 1555 1555 1.75 LINK SG CYS B 300 C02 U88 B 401 1555 1555 1.76 LINK O ASN B 221 NA NA B 407 1555 1555 2.86 LINK OD1 ASN B 221 NA NA B 407 1555 1555 2.18 LINK O PHE B 223 NA NA B 407 1555 1555 2.35 LINK O ASP B 263 NA NA B 407 1555 1555 2.76 LINK OD1 ASP B 263 NA NA B 407 1555 1555 2.08 LINK NA NA B 407 O HOH B 509 1555 1555 2.42 CRYST1 68.234 100.015 103.698 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 0.014655 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009999 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009643 0.00000