HEADER VIRAL PROTEIN 23-MAY-23 8P5C TITLE CRYSTAL STRUCTURE OF THE MAIN PROTEASE (3CLPRO/MPRO) OF SARS-COV-2 TITLE 2 OBTAINED IN PRESENCE OF 5 MILLIMOLAR X77 ENANTIOMER S. 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 8P5C 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. 1.51 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) : 1.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.54 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 111766 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.160 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.150 REMARK 3 FREE R VALUE TEST SET COUNT : 5760 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 49.5400 - 4.6900 1.00 3769 227 0.1714 0.1731 REMARK 3 2 4.6900 - 3.7200 1.00 3634 215 0.1302 0.1600 REMARK 3 3 3.7200 - 3.2500 1.00 3587 182 0.1442 0.1531 REMARK 3 4 3.2500 - 2.9600 1.00 3616 165 0.1501 0.1539 REMARK 3 5 2.9600 - 2.7400 1.00 3568 201 0.1515 0.1635 REMARK 3 6 2.7400 - 2.5800 1.00 3593 172 0.1485 0.1728 REMARK 3 7 2.5800 - 2.4500 1.00 3509 213 0.1482 0.1636 REMARK 3 8 2.4500 - 2.3500 1.00 3568 171 0.1490 0.1638 REMARK 3 9 2.3500 - 2.2600 1.00 3544 182 0.1465 0.1701 REMARK 3 10 2.2600 - 2.1800 1.00 3533 200 0.1462 0.1847 REMARK 3 11 2.1800 - 2.1100 1.00 3550 178 0.1473 0.1510 REMARK 3 12 2.1100 - 2.0500 1.00 3501 208 0.1484 0.1714 REMARK 3 13 2.0500 - 2.0000 1.00 3513 188 0.1499 0.1763 REMARK 3 14 2.0000 - 1.9500 1.00 3538 164 0.1556 0.1752 REMARK 3 15 1.9500 - 1.9000 1.00 3498 227 0.1745 0.2157 REMARK 3 16 1.9000 - 1.8600 1.00 3520 182 0.1854 0.2191 REMARK 3 17 1.8600 - 1.8200 1.00 3503 180 0.1827 0.2371 REMARK 3 18 1.8200 - 1.7900 1.00 3531 175 0.1789 0.2195 REMARK 3 19 1.7900 - 1.7600 1.00 3502 181 0.1785 0.2172 REMARK 3 20 1.7600 - 1.7300 1.00 3518 177 0.1831 0.2115 REMARK 3 21 1.7300 - 1.7000 1.00 3514 186 0.1824 0.2289 REMARK 3 22 1.7000 - 1.6700 1.00 3509 197 0.1919 0.2172 REMARK 3 23 1.6700 - 1.6500 1.00 3500 205 0.1972 0.2047 REMARK 3 24 1.6500 - 1.6300 1.00 3474 176 0.2058 0.2061 REMARK 3 25 1.6300 - 1.6000 1.00 3531 207 0.2179 0.2643 REMARK 3 26 1.6000 - 1.5800 1.00 3438 200 0.2221 0.2525 REMARK 3 27 1.5800 - 1.5600 1.00 3493 199 0.2212 0.2368 REMARK 3 28 1.5600 - 1.5500 1.00 3490 216 0.2508 0.2590 REMARK 3 29 1.5500 - 1.5300 1.00 3433 221 0.2677 0.2757 REMARK 3 30 1.5300 - 1.5100 1.00 3529 165 0.2914 0.2958 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) : 0.161 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.514 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.95 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.41 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 4944 REMARK 3 ANGLE : 1.071 6722 REMARK 3 CHIRALITY : 0.066 750 REMARK 3 PLANARITY : 0.010 876 REMARK 3 DIHEDRAL : 14.048 1803 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.2588 -7.1386 -18.2305 REMARK 3 T TENSOR REMARK 3 T11: 0.1259 T22: 0.1353 REMARK 3 T33: 0.1142 T12: 0.0149 REMARK 3 T13: -0.0008 T23: 0.0115 REMARK 3 L TENSOR REMARK 3 L11: 2.4260 L22: 0.8874 REMARK 3 L33: 2.1349 L12: -0.0890 REMARK 3 L13: -0.5843 L23: -0.2332 REMARK 3 S TENSOR REMARK 3 S11: -0.0663 S12: -0.0368 S13: -0.0220 REMARK 3 S21: 0.0103 S22: -0.0022 S23: -0.0423 REMARK 3 S31: -0.0117 S32: 0.2009 S33: 0.0732 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.3298 -3.2311 -24.3582 REMARK 3 T TENSOR REMARK 3 T11: 0.1823 T22: 0.3198 REMARK 3 T33: 0.2390 T12: -0.0074 REMARK 3 T13: -0.0113 T23: 0.0352 REMARK 3 L TENSOR REMARK 3 L11: 2.4281 L22: 1.2091 REMARK 3 L33: 5.0086 L12: 0.4204 REMARK 3 L13: -1.5463 L23: -1.1463 REMARK 3 S TENSOR REMARK 3 S11: 0.0604 S12: -0.2698 S13: 0.1520 REMARK 3 S21: 0.0963 S22: -0.0154 S23: -0.0698 REMARK 3 S31: -0.2499 S32: 0.2479 S33: 0.0043 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 77 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.1115 -14.5973 -22.7888 REMARK 3 T TENSOR REMARK 3 T11: 0.1560 T22: 0.1586 REMARK 3 T33: 0.1657 T12: 0.0567 REMARK 3 T13: 0.0191 T23: 0.0140 REMARK 3 L TENSOR REMARK 3 L11: 1.4053 L22: 0.8190 REMARK 3 L33: 1.9883 L12: -0.2115 REMARK 3 L13: 0.1230 L23: -0.6408 REMARK 3 S TENSOR REMARK 3 S11: -0.0622 S12: -0.0893 S13: -0.1379 REMARK 3 S21: 0.0099 S22: -0.0854 S23: -0.1309 REMARK 3 S31: 0.1556 S32: 0.3745 S33: 0.1010 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 180 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.1391 -4.5438 -24.4954 REMARK 3 T TENSOR REMARK 3 T11: 0.1166 T22: 0.1143 REMARK 3 T33: 0.1386 T12: 0.0003 REMARK 3 T13: 0.0018 T23: 0.0092 REMARK 3 L TENSOR REMARK 3 L11: 2.5822 L22: 0.9828 REMARK 3 L33: 2.8528 L12: -0.0445 REMARK 3 L13: 0.2014 L23: 0.3149 REMARK 3 S TENSOR REMARK 3 S11: -0.0010 S12: 0.0374 S13: 0.0403 REMARK 3 S21: -0.0024 S22: -0.0269 S23: 0.0194 REMARK 3 S31: -0.0364 S32: 0.0591 S33: 0.0409 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 181 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.0492 -3.3056 -34.1327 REMARK 3 T TENSOR REMARK 3 T11: 0.1479 T22: 0.1832 REMARK 3 T33: 0.1472 T12: -0.0001 REMARK 3 T13: -0.0108 T23: 0.0250 REMARK 3 L TENSOR REMARK 3 L11: 4.6204 L22: 0.3813 REMARK 3 L33: 0.3789 L12: 0.1334 REMARK 3 L13: -0.2970 L23: -0.0242 REMARK 3 S TENSOR REMARK 3 S11: -0.0466 S12: 0.3363 S13: 0.3911 REMARK 3 S21: -0.0608 S22: 0.0514 S23: 0.0236 REMARK 3 S31: -0.0255 S32: 0.0737 S33: -0.0209 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 306 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.1334 -7.5421 -32.5822 REMARK 3 T TENSOR REMARK 3 T11: 0.1433 T22: 0.1686 REMARK 3 T33: 0.1786 T12: -0.0016 REMARK 3 T13: -0.0037 T23: 0.0009 REMARK 3 L TENSOR REMARK 3 L11: 1.8860 L22: 1.7082 REMARK 3 L33: 2.1900 L12: -0.3539 REMARK 3 L13: 0.3921 L23: -0.2574 REMARK 3 S TENSOR REMARK 3 S11: -0.0420 S12: -0.0950 S13: -0.0685 REMARK 3 S21: 0.0750 S22: 0.0553 S23: 0.1540 REMARK 3 S31: 0.0086 S32: -0.1124 S33: -0.0150 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.0706 -10.7905 -1.2994 REMARK 3 T TENSOR REMARK 3 T11: 0.1808 T22: 0.1070 REMARK 3 T33: 0.1486 T12: 0.0072 REMARK 3 T13: 0.0128 T23: -0.0016 REMARK 3 L TENSOR REMARK 3 L11: 1.3936 L22: 1.0098 REMARK 3 L33: 2.3932 L12: -0.1687 REMARK 3 L13: -0.1448 L23: -0.8554 REMARK 3 S TENSOR REMARK 3 S11: -0.0365 S12: -0.1164 S13: -0.1631 REMARK 3 S21: -0.0431 S22: 0.0012 S23: 0.0605 REMARK 3 S31: 0.2942 S32: 0.0336 S33: 0.0452 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 44 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7582 -13.8959 8.5923 REMARK 3 T TENSOR REMARK 3 T11: 0.2779 T22: 0.2428 REMARK 3 T33: 0.1880 T12: -0.0119 REMARK 3 T13: 0.0265 T23: 0.0383 REMARK 3 L TENSOR REMARK 3 L11: 2.6511 L22: 2.2332 REMARK 3 L33: 2.6469 L12: -0.6605 REMARK 3 L13: 0.2650 L23: -0.4173 REMARK 3 S TENSOR REMARK 3 S11: -0.0541 S12: -0.4347 S13: -0.4385 REMARK 3 S21: 0.1261 S22: 0.0939 S23: 0.2713 REMARK 3 S31: 0.4793 S32: -0.2655 S33: -0.0178 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 111 THROUGH 180 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.6856 -3.8715 -4.6642 REMARK 3 T TENSOR REMARK 3 T11: 0.1416 T22: 0.1111 REMARK 3 T33: 0.1250 T12: -0.0084 REMARK 3 T13: 0.0162 T23: 0.0128 REMARK 3 L TENSOR REMARK 3 L11: 2.0936 L22: 1.6767 REMARK 3 L33: 2.6199 L12: -0.8729 REMARK 3 L13: -0.1854 L23: -0.2543 REMARK 3 S TENSOR REMARK 3 S11: 0.0127 S12: -0.0248 S13: -0.0277 REMARK 3 S21: -0.0439 S22: -0.0487 S23: -0.0358 REMARK 3 S31: 0.0825 S32: -0.0504 S33: 0.0295 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 181 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.6375 16.3872 -14.4999 REMARK 3 T TENSOR REMARK 3 T11: 0.1878 T22: 0.1173 REMARK 3 T33: 0.1649 T12: 0.0205 REMARK 3 T13: 0.0252 T23: -0.0133 REMARK 3 L TENSOR REMARK 3 L11: 0.6237 L22: 1.8954 REMARK 3 L33: 2.2387 L12: 0.5306 REMARK 3 L13: -0.4761 L23: -1.4535 REMARK 3 S TENSOR REMARK 3 S11: 0.0536 S12: 0.0172 S13: 0.1226 REMARK 3 S21: 0.0710 S22: 0.0570 S23: 0.0764 REMARK 3 S31: -0.3106 S32: -0.1049 S33: -0.0964 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 302 THROUGH 305 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.6370 3.7515 -9.4975 REMARK 3 T TENSOR REMARK 3 T11: 0.4563 T22: 0.7661 REMARK 3 T33: 0.4600 T12: -0.0259 REMARK 3 T13: 0.0413 T23: -0.0559 REMARK 3 L TENSOR REMARK 3 L11: 6.1279 L22: 4.8219 REMARK 3 L33: 5.3495 L12: 0.8833 REMARK 3 L13: -3.2857 L23: -0.2103 REMARK 3 S TENSOR REMARK 3 S11: -0.2410 S12: -0.3344 S13: -0.4618 REMARK 3 S21: 0.1273 S22: 0.1845 S23: 0.2288 REMARK 3 S31: -0.2549 S32: -0.0240 S33: 0.1032 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 8P5C 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_1292130707. 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 : 111866 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.510 REMARK 200 RESOLUTION RANGE LOW (A) : 103.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.70 REMARK 200 R MERGE (I) : 0.13800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.51 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 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 (%): 52.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM FORMATE 0.1M AMMONIUM REMARK 280 ACETATE 0.1M SODIUM CITRATE TRIBASIC DIHYDRATE 0.1M POTASSIUM REMARK 280 SODIUM TARTRATE TETRAHYDRATE 0.1M SODIUM OXAMATE, 0.1M IMIDAZOLE/ REMARK 280 MES PH 6.5, 12.5% V/V MPD 12.5% PEG 1000 12.5% W/V PEG 3350, REMARK 280 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 34.14800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.88850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.93200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.88850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.14800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.93200 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 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLN B 306 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 33 -130.76 53.41 REMARK 500 ASN A 51 58.33 -140.72 REMARK 500 ASN A 84 -125.10 53.51 REMARK 500 TYR A 154 47.94 71.14 REMARK 500 ASP A 155 -2.12 64.94 REMARK 500 ASP B 33 -131.90 53.09 REMARK 500 ASN B 51 78.76 -156.06 REMARK 500 ASN B 84 -126.66 48.46 REMARK 500 TYR B 154 -97.26 55.76 REMARK 500 GLN B 189 88.32 -65.89 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 832 DISTANCE = 5.96 ANGSTROMS REMARK 525 HOH A 833 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH A 834 DISTANCE = 6.41 ANGSTROMS REMARK 525 HOH A 835 DISTANCE = 6.75 ANGSTROMS REMARK 525 HOH B 785 DISTANCE = 5.84 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 405 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 221 O REMARK 620 2 ASN B 221 OD1 73.4 REMARK 620 3 PHE B 223 O 112.4 94.0 REMARK 620 4 ASP B 263 O 154.4 117.7 90.6 REMARK 620 5 ASP B 263 OD1 94.9 167.5 94.4 71.4 REMARK 620 6 HOH B 543 O 78.3 97.3 166.4 77.4 75.8 REMARK 620 N 1 2 3 4 5 DBREF 8P5C A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 8P5C 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 9M5 A 401 66 HET EDO A 402 10 HET ACT A 403 7 HET 9M5 B 401 66 HET ACT B 402 7 HET DMS B 403 10 HET CL B 404 1 HET NA B 405 1 HETNAM 9M5 ~{N}-(4-~{TERT}-BUTYLPHENYL)-~{N}-[(1~{S})-2- HETNAM 2 9M5 (CYCLOHEXYLAMINO)-2-OXIDANYLIDENE-1-PYRIDIN-3-YL- HETNAM 3 9M5 ETHYL]-1~{H}-IMIDAZOLE-4-CARBOXAMIDE HETNAM EDO 1,2-ETHANEDIOL HETNAM ACT ACETATE ION HETNAM DMS DIMETHYL SULFOXIDE HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 9M5 2(C27 H33 N5 O2) FORMUL 4 EDO C2 H6 O2 FORMUL 5 ACT 2(C2 H3 O2 1-) FORMUL 8 DMS C2 H6 O S FORMUL 9 CL CL 1- FORMUL 10 NA NA 1+ FORMUL 11 HOH *620(H2 O) HELIX 1 AA1 SER A 10 GLY A 15 1 6 HELIX 2 AA2 HIS A 41 CYS A 44 5 4 HELIX 3 AA3 THR A 45 MET A 49 5 5 HELIX 4 AA4 ASN A 53 ARG A 60 1 8 HELIX 5 AA5 SER A 62 HIS A 64 5 3 HELIX 6 AA6 ILE A 152 CYS A 156 5 5 HELIX 7 AA7 ILE A 200 ASN A 214 1 15 HELIX 8 AA8 THR A 226 LYS A 236 1 11 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 CYS A 300 1 9 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 GLU B 47 ASN B 51 5 5 HELIX 16 AB7 ASN B 53 ARG B 60 1 8 HELIX 17 AB8 SER B 62 HIS B 64 5 3 HELIX 18 AB9 ILE B 200 ASN B 214 1 15 HELIX 19 AC1 THR B 226 TYR B 237 1 12 HELIX 20 AC2 THR B 243 LEU B 250 1 8 HELIX 21 AC3 LEU B 250 GLY B 258 1 9 HELIX 22 AC4 ALA B 260 GLY B 275 1 16 HELIX 23 AC5 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 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 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 405 1555 1555 2.67 LINK OD1 ASN B 221 NA NA B 405 1555 1555 2.34 LINK O PHE B 223 NA NA B 405 1555 1555 2.34 LINK O ASP B 263 NA NA B 405 1555 1555 2.82 LINK OD1 ASP B 263 NA NA B 405 1555 1555 2.01 LINK NA NA B 405 O HOH B 543 1555 1555 2.34 CRYST1 68.296 99.864 103.777 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 0.014642 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010014 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009636 0.00000