HEADER VIRAL PROTEIN 23-MAY-23 8P5B TITLE CRYSTAL STRUCTURE OF THE MAIN PROTEASE (3CLPRO/MPRO) OF SARS-COV-2 TITLE 2 OBTAINED IN PRESENCE OF 500 MICROMOLAR 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 8P5B 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. 1.47 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) : 1.47 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 51.86 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 121365 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.940 REMARK 3 FREE R VALUE TEST SET COUNT : 5993 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 51.8600 - 4.5500 1.00 4092 231 0.1633 0.1526 REMARK 3 2 4.5500 - 3.6100 1.00 3953 207 0.1327 0.1381 REMARK 3 3 3.6100 - 3.1600 1.00 3958 173 0.1497 0.1448 REMARK 3 4 3.1600 - 2.8700 1.00 3887 195 0.1589 0.1812 REMARK 3 5 2.8700 - 2.6600 1.00 3901 188 0.1548 0.1740 REMARK 3 6 2.6600 - 2.5100 1.00 3878 204 0.1529 0.1875 REMARK 3 7 2.5100 - 2.3800 1.00 3895 170 0.1552 0.1701 REMARK 3 8 2.3800 - 2.2800 1.00 3833 201 0.1508 0.1619 REMARK 3 9 2.2800 - 2.1900 1.00 3874 191 0.1531 0.1779 REMARK 3 10 2.1900 - 2.1100 1.00 3848 193 0.1508 0.2128 REMARK 3 11 2.1100 - 2.0500 1.00 3843 206 0.1608 0.1888 REMARK 3 12 2.0500 - 1.9900 1.00 3842 196 0.1624 0.1959 REMARK 3 13 1.9900 - 1.9400 1.00 3853 178 0.1686 0.1885 REMARK 3 14 1.9400 - 1.8900 1.00 3795 213 0.1874 0.2065 REMARK 3 15 1.8900 - 1.8500 1.00 3846 197 0.1853 0.1851 REMARK 3 16 1.8500 - 1.8100 1.00 3791 239 0.1747 0.2017 REMARK 3 17 1.8100 - 1.7700 1.00 3790 222 0.1709 0.1908 REMARK 3 18 1.7700 - 1.7400 1.00 3836 186 0.1748 0.1922 REMARK 3 19 1.7400 - 1.7100 1.00 3811 203 0.1859 0.2063 REMARK 3 20 1.7100 - 1.6800 1.00 3801 190 0.1855 0.1796 REMARK 3 21 1.6800 - 1.6500 1.00 3854 197 0.1913 0.2466 REMARK 3 22 1.6500 - 1.6200 1.00 3785 211 0.2061 0.2087 REMARK 3 23 1.6200 - 1.6000 1.00 3825 208 0.2117 0.2395 REMARK 3 24 1.6000 - 1.5800 1.00 3809 188 0.2136 0.2250 REMARK 3 25 1.5800 - 1.5600 1.00 3819 203 0.2161 0.2484 REMARK 3 26 1.5600 - 1.5400 1.00 3795 203 0.2313 0.2403 REMARK 3 27 1.5400 - 1.5200 0.99 3779 213 0.2930 0.2917 REMARK 3 28 1.5200 - 1.5000 0.99 3769 203 0.2702 0.3026 REMARK 3 29 1.5000 - 1.4800 1.00 3815 200 0.2637 0.3024 REMARK 3 30 1.4800 - 1.4700 1.00 3795 184 0.3182 0.3300 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) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.007 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.33 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.39 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 4868 REMARK 3 ANGLE : 0.933 6615 REMARK 3 CHIRALITY : 0.075 744 REMARK 3 PLANARITY : 0.008 862 REMARK 3 DIHEDRAL : 13.740 1738 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.1503 -7.2287 -18.3066 REMARK 3 T TENSOR REMARK 3 T11: 0.1323 T22: 0.1218 REMARK 3 T33: 0.1209 T12: 0.0145 REMARK 3 T13: -0.0012 T23: 0.0004 REMARK 3 L TENSOR REMARK 3 L11: 2.7172 L22: 0.7874 REMARK 3 L33: 1.9632 L12: -0.0761 REMARK 3 L13: -0.4977 L23: -0.1144 REMARK 3 S TENSOR REMARK 3 S11: -0.0518 S12: -0.0817 S13: 0.0346 REMARK 3 S21: 0.0178 S22: -0.0068 S23: -0.0049 REMARK 3 S31: 0.0020 S32: 0.1978 S33: 0.0603 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.0715 -3.3993 -24.4740 REMARK 3 T TENSOR REMARK 3 T11: 0.2066 T22: 0.2958 REMARK 3 T33: 0.2267 T12: 0.0031 REMARK 3 T13: -0.0112 T23: 0.0184 REMARK 3 L TENSOR REMARK 3 L11: 2.5047 L22: 1.0541 REMARK 3 L33: 4.4943 L12: 0.3778 REMARK 3 L13: -1.3352 L23: -1.1191 REMARK 3 S TENSOR REMARK 3 S11: 0.0059 S12: -0.2574 S13: 0.1429 REMARK 3 S21: 0.1542 S22: 0.0035 S23: -0.0337 REMARK 3 S31: -0.3476 S32: 0.2208 S33: -0.0078 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 77 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.9466 -14.6968 -22.8624 REMARK 3 T TENSOR REMARK 3 T11: 0.1639 T22: 0.1591 REMARK 3 T33: 0.1888 T12: 0.0593 REMARK 3 T13: 0.0230 T23: 0.0104 REMARK 3 L TENSOR REMARK 3 L11: 1.5113 L22: 0.7851 REMARK 3 L33: 1.9513 L12: -0.2112 REMARK 3 L13: 0.1105 L23: -0.6065 REMARK 3 S TENSOR REMARK 3 S11: -0.0598 S12: -0.0757 S13: -0.2080 REMARK 3 S21: 0.0140 S22: -0.0814 S23: -0.1157 REMARK 3 S31: 0.1527 S32: 0.3659 S33: 0.1090 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 166 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.3127 -4.9009 -23.0379 REMARK 3 T TENSOR REMARK 3 T11: 0.1175 T22: 0.1114 REMARK 3 T33: 0.1408 T12: 0.0030 REMARK 3 T13: 0.0028 T23: 0.0065 REMARK 3 L TENSOR REMARK 3 L11: 3.0697 L22: 1.0139 REMARK 3 L33: 3.3759 L12: -0.1164 REMARK 3 L13: 0.5352 L23: 0.4553 REMARK 3 S TENSOR REMARK 3 S11: -0.0158 S12: 0.0277 S13: 0.0282 REMARK 3 S21: -0.0098 S22: -0.0155 S23: -0.0062 REMARK 3 S31: -0.0381 S32: 0.0805 S33: 0.0420 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 167 THROUGH 200 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.5302 -1.4394 -35.1046 REMARK 3 T TENSOR REMARK 3 T11: 0.1716 T22: 0.2314 REMARK 3 T33: 0.1637 T12: -0.0012 REMARK 3 T13: -0.0060 T23: 0.0422 REMARK 3 L TENSOR REMARK 3 L11: 3.5043 L22: 0.5446 REMARK 3 L33: 1.0928 L12: 0.3196 REMARK 3 L13: -0.4955 L23: 0.4453 REMARK 3 S TENSOR REMARK 3 S11: 0.0087 S12: 0.5192 S13: 0.3197 REMARK 3 S21: -0.0917 S22: 0.0239 S23: -0.0279 REMARK 3 S31: -0.1949 S32: 0.0913 S33: -0.0214 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 201 THROUGH 306 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.9596 -7.4933 -32.2425 REMARK 3 T TENSOR REMARK 3 T11: 0.1243 T22: 0.1591 REMARK 3 T33: 0.1637 T12: 0.0022 REMARK 3 T13: -0.0014 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 1.7177 L22: 1.6001 REMARK 3 L33: 2.4302 L12: -0.2359 REMARK 3 L13: 0.5237 L23: -0.2312 REMARK 3 S TENSOR REMARK 3 S11: -0.0175 S12: -0.0925 S13: -0.0680 REMARK 3 S21: 0.0793 S22: 0.0334 S23: 0.1124 REMARK 3 S31: 0.0003 S32: -0.0805 S33: -0.0153 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.0353 -10.7141 -1.3416 REMARK 3 T TENSOR REMARK 3 T11: 0.1885 T22: 0.0954 REMARK 3 T33: 0.1486 T12: 0.0056 REMARK 3 T13: 0.0122 T23: -0.0023 REMARK 3 L TENSOR REMARK 3 L11: 1.4477 L22: 0.7311 REMARK 3 L33: 2.4766 L12: -0.2562 REMARK 3 L13: -0.1144 L23: -0.4699 REMARK 3 S TENSOR REMARK 3 S11: -0.0273 S12: -0.1084 S13: -0.1677 REMARK 3 S21: -0.0278 S22: -0.0330 S23: 0.0098 REMARK 3 S31: 0.2778 S32: 0.0365 S33: 0.0539 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 44 THROUGH 180 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7938 -8.7230 1.9001 REMARK 3 T TENSOR REMARK 3 T11: 0.1672 T22: 0.1199 REMARK 3 T33: 0.1452 T12: -0.0237 REMARK 3 T13: 0.0254 T23: 0.0274 REMARK 3 L TENSOR REMARK 3 L11: 2.0345 L22: 1.2765 REMARK 3 L33: 2.6356 L12: -0.8824 REMARK 3 L13: 0.4949 L23: -0.2646 REMARK 3 S TENSOR REMARK 3 S11: -0.0229 S12: -0.2328 S13: -0.2092 REMARK 3 S21: 0.0573 S22: 0.0573 S23: 0.0904 REMARK 3 S31: 0.3052 S32: -0.1690 S33: 0.0213 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 181 THROUGH 305 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.9569 15.9966 -14.3976 REMARK 3 T TENSOR REMARK 3 T11: 0.1839 T22: 0.1110 REMARK 3 T33: 0.1655 T12: 0.0054 REMARK 3 T13: 0.0325 T23: -0.0173 REMARK 3 L TENSOR REMARK 3 L11: 0.7898 L22: 1.9260 REMARK 3 L33: 2.7245 L12: 0.4426 REMARK 3 L13: -0.6739 L23: -1.3653 REMARK 3 S TENSOR REMARK 3 S11: 0.1026 S12: -0.0063 S13: 0.1348 REMARK 3 S21: -0.0013 S22: 0.0425 S23: 0.0170 REMARK 3 S31: -0.3189 S32: 0.0137 S33: -0.1288 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 8P5B 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_1292130706. 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 : 121551 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.470 REMARK 200 RESOLUTION RANGE LOW (A) : 103.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 8.900 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.47 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.49 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 (%): 52.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 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 33.96500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.86000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.91550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.86000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.96500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.91550 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: 4070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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 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 -130.59 52.76 REMARK 500 ASN A 51 53.81 -143.83 REMARK 500 ASN A 84 -124.39 53.82 REMARK 500 TYR A 154 42.19 71.04 REMARK 500 ASP A 155 -5.98 72.77 REMARK 500 ASP B 33 -137.60 53.95 REMARK 500 ASN B 51 80.32 -160.51 REMARK 500 ASN B 84 -125.91 52.11 REMARK 500 TYR B 154 -97.53 52.96 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 880 DISTANCE = 5.89 ANGSTROMS REMARK 525 HOH A 881 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH A 882 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH A 883 DISTANCE = 6.41 ANGSTROMS REMARK 525 HOH A 884 DISTANCE = 6.58 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 403 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 221 O REMARK 620 2 ASN B 221 OD1 75.2 REMARK 620 3 PHE B 223 O 112.0 95.6 REMARK 620 4 ASP B 263 O 153.0 118.2 90.8 REMARK 620 5 ASP B 263 OD1 93.7 168.8 90.0 71.2 REMARK 620 6 HOH B 557 O 77.1 98.9 164.5 77.6 76.6 REMARK 620 N 1 2 3 4 5 DBREF 8P5B A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 8P5B 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 DMS A 401 10 HET EDO A 402 10 HET CL A 403 1 HET DMS B 401 10 HET EDO B 402 10 HET NA B 403 1 HETNAM DMS DIMETHYL SULFOXIDE HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 DMS 2(C2 H6 O S) FORMUL 4 EDO 2(C2 H6 O2) FORMUL 5 CL CL 1- FORMUL 8 NA NA 1+ FORMUL 9 HOH *677(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 LEU A 50 5 6 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 THR B 45 ASN B 51 1 7 HELIX 16 AB7 ASN B 53 ARG B 60 1 8 HELIX 17 AB8 SER B 62 PHE B 66 5 5 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 89 N VAL A 36 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 LEU B 67 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 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 403 1555 1555 2.69 LINK OD1 ASN B 221 NA NA B 403 1555 1555 2.28 LINK O PHE B 223 NA NA B 403 1555 1555 2.27 LINK O ASP B 263 NA NA B 403 1555 1555 2.87 LINK OD1 ASP B 263 NA NA B 403 1555 1555 2.12 LINK NA NA B 403 O HOH B 557 1555 1555 2.34 CRYST1 67.930 99.831 103.720 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 0.014721 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010017 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009641 0.00000