HEADER HYDROLASE 18-JUN-22 8DDL TITLE SARS-COV-2 MAIN PROTEASE (MPRO) H163A MUTANT APO STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ORF1A POLYPROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ORF1A POLYPROTEIN; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: 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: ORF1AB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 10 2; SOURCE 11 ORGANISM_TAXID: 2697049; SOURCE 12 GENE: ORF1AB; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS CYSTEINE PROTEASE, SARS-COV-2, 3CL-LIKE, DISULFIDE BOND, VIRAL KEYWDS 2 PROTEIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR N.TRAN,M.J.MCLEOD,S.KALYAANAMOORTHY,A.GANESAN,T.HOLYOAK REVDAT 4 15-NOV-23 8DDL 1 REMARK REVDAT 3 25-OCT-23 8DDL 1 REMARK REVDAT 2 27-SEP-23 8DDL 1 JRNL REVDAT 1 28-JUN-23 8DDL 0 JRNL AUTH N.TRAN,S.DASARI,S.A.E.BARWELL,M.J.MCLEOD,S.KALYAANAMOORTHY, JRNL AUTH 2 T.HOLYOAK,A.GANESAN JRNL TITL THE H163A MUTATION UNRAVELS AN OXIDIZED CONFORMATION OF THE JRNL TITL 2 SARS-COV-2 MAIN PROTEASE. JRNL REF NAT COMMUN V. 14 5625 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 37699927 JRNL DOI 10.1038/S41467-023-40023-4 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 56.54 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 52592 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 2661 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 5.1800 - 4.1100 1.00 2705 155 0.1329 0.1510 REMARK 3 2 4.1100 - 3.5900 1.00 2692 128 0.1470 0.1727 REMARK 3 3 3.5900 - 3.2600 1.00 2665 145 0.1635 0.1983 REMARK 3 4 3.2600 - 3.0300 1.00 2642 153 0.1928 0.2584 REMARK 3 5 3.0300 - 2.8500 1.00 2654 126 0.1815 0.2069 REMARK 3 6 2.8500 - 2.7100 1.00 2644 120 0.1811 0.2382 REMARK 3 7 2.7100 - 2.5900 1.00 2633 161 0.1856 0.2572 REMARK 3 8 2.5900 - 2.4900 1.00 2608 144 0.1830 0.2167 REMARK 3 9 2.4900 - 2.4000 1.00 2578 189 0.1902 0.2458 REMARK 3 10 2.4000 - 2.3300 1.00 2608 128 0.1801 0.2156 REMARK 3 11 2.3300 - 2.2600 1.00 2629 130 0.1750 0.2259 REMARK 3 12 2.2600 - 2.2000 1.00 2623 149 0.1729 0.2320 REMARK 3 13 2.2000 - 2.1500 1.00 2624 113 0.1723 0.2160 REMARK 3 14 2.1500 - 2.1000 1.00 2630 135 0.1731 0.2431 REMARK 3 15 2.1000 - 2.0600 1.00 2583 154 0.1802 0.2464 REMARK 3 16 2.0600 - 2.0100 1.00 2622 113 0.1965 0.1940 REMARK 3 17 2.0100 - 1.9800 1.00 2616 126 0.2113 0.2582 REMARK 3 18 1.9800 - 1.9500 0.91 2354 131 0.2309 0.2821 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.470 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.005 4884 REMARK 3 ANGLE : 0.758 6655 REMARK 3 CHIRALITY : 0.050 753 REMARK 3 PLANARITY : 0.005 867 REMARK 3 DIHEDRAL : 13.648 1797 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 4 THROUGH 100 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.9874 32.0259 -11.0949 REMARK 3 T TENSOR REMARK 3 T11: 0.2857 T22: 0.2202 REMARK 3 T33: 0.1832 T12: 0.0311 REMARK 3 T13: 0.0047 T23: -0.0391 REMARK 3 L TENSOR REMARK 3 L11: 2.9932 L22: 3.2635 REMARK 3 L33: 2.8555 L12: -1.6172 REMARK 3 L13: -0.1035 L23: 0.9160 REMARK 3 S TENSOR REMARK 3 S11: -0.2057 S12: -0.4436 S13: 0.2916 REMARK 3 S21: 0.4890 S22: 0.1708 S23: 0.0484 REMARK 3 S31: -0.1397 S32: -0.2157 S33: 0.0252 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 101 THROUGH 200 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.3448 21.8663 -23.4512 REMARK 3 T TENSOR REMARK 3 T11: 0.1889 T22: 0.1604 REMARK 3 T33: 0.1512 T12: 0.0098 REMARK 3 T13: 0.0203 T23: -0.0165 REMARK 3 L TENSOR REMARK 3 L11: 3.7793 L22: 2.5201 REMARK 3 L33: 1.7130 L12: -0.4262 REMARK 3 L13: 0.8297 L23: 0.9140 REMARK 3 S TENSOR REMARK 3 S11: 0.0226 S12: -0.1394 S13: -0.1164 REMARK 3 S21: 0.1802 S22: -0.0355 S23: 0.2276 REMARK 3 S31: 0.0862 S32: -0.1465 S33: 0.0080 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 201 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.9014 8.3233 -44.8073 REMARK 3 T TENSOR REMARK 3 T11: 0.2591 T22: 0.1769 REMARK 3 T33: 0.1608 T12: 0.0349 REMARK 3 T13: -0.0084 T23: -0.0259 REMARK 3 L TENSOR REMARK 3 L11: 4.2923 L22: 5.0607 REMARK 3 L33: 6.1940 L12: -0.6186 REMARK 3 L13: -0.6531 L23: 2.3996 REMARK 3 S TENSOR REMARK 3 S11: -0.0651 S12: 0.0324 S13: -0.0452 REMARK 3 S21: -0.2007 S22: -0.0576 S23: 0.1874 REMARK 3 S31: -0.2860 S32: -0.0883 S33: 0.1069 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 50 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.8192 5.6991 -19.3667 REMARK 3 T TENSOR REMARK 3 T11: 0.2036 T22: 0.1386 REMARK 3 T33: 0.1539 T12: -0.0289 REMARK 3 T13: 0.0124 T23: 0.0119 REMARK 3 L TENSOR REMARK 3 L11: 3.9707 L22: 2.0429 REMARK 3 L33: 1.0768 L12: -1.8690 REMARK 3 L13: -0.4558 L23: 0.2866 REMARK 3 S TENSOR REMARK 3 S11: 0.0639 S12: 0.1289 S13: -0.0322 REMARK 3 S21: -0.1897 S22: -0.0245 S23: -0.1377 REMARK 3 S31: -0.0203 S32: 0.0318 S33: -0.0550 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 51 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.1880 3.5365 -18.6427 REMARK 3 T TENSOR REMARK 3 T11: 0.1764 T22: 0.2619 REMARK 3 T33: 0.3321 T12: -0.0507 REMARK 3 T13: 0.0299 T23: -0.0213 REMARK 3 L TENSOR REMARK 3 L11: 3.5155 L22: 5.9182 REMARK 3 L33: 2.2640 L12: -2.9193 REMARK 3 L13: -0.8257 L23: 1.9526 REMARK 3 S TENSOR REMARK 3 S11: -0.0938 S12: -0.1414 S13: 0.5569 REMARK 3 S21: -0.0711 S22: 0.2212 S23: -0.6942 REMARK 3 S31: -0.1604 S32: 0.3639 S33: -0.1274 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 77 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.4894 3.0677 -9.6070 REMARK 3 T TENSOR REMARK 3 T11: 0.1973 T22: 0.2163 REMARK 3 T33: 0.1577 T12: 0.0317 REMARK 3 T13: -0.0384 T23: 0.0124 REMARK 3 L TENSOR REMARK 3 L11: 3.0764 L22: 3.5171 REMARK 3 L33: 1.2501 L12: 1.2631 REMARK 3 L13: 0.1576 L23: 0.7823 REMARK 3 S TENSOR REMARK 3 S11: -0.0487 S12: -0.3249 S13: -0.0678 REMARK 3 S21: 0.1963 S22: 0.1052 S23: -0.2593 REMARK 3 S31: -0.0604 S32: 0.0581 S33: -0.0727 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 111 THROUGH 143 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.3998 2.9415 -23.2549 REMARK 3 T TENSOR REMARK 3 T11: 0.3042 T22: 0.2354 REMARK 3 T33: 0.2355 T12: 0.0128 REMARK 3 T13: 0.0451 T23: 0.0124 REMARK 3 L TENSOR REMARK 3 L11: 3.1475 L22: 6.4369 REMARK 3 L33: 0.9623 L12: 2.2146 REMARK 3 L13: 1.3066 L23: 1.1883 REMARK 3 S TENSOR REMARK 3 S11: -0.1771 S12: 0.5042 S13: -0.0596 REMARK 3 S21: -0.9904 S22: 0.1980 S23: -0.4098 REMARK 3 S31: -0.2076 S32: 0.1452 S33: 0.0252 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 144 THROUGH 200 ) REMARK 3 ORIGIN FOR THE GROUP (A): 30.2731 -3.4582 -19.5460 REMARK 3 T TENSOR REMARK 3 T11: 0.1502 T22: 0.1310 REMARK 3 T33: 0.1769 T12: -0.0171 REMARK 3 T13: -0.0056 T23: 0.0298 REMARK 3 L TENSOR REMARK 3 L11: 5.2117 L22: 2.3022 REMARK 3 L33: 1.2579 L12: -0.7861 REMARK 3 L13: -0.4822 L23: 0.3020 REMARK 3 S TENSOR REMARK 3 S11: 0.0359 S12: 0.1658 S13: -0.3172 REMARK 3 S21: -0.0854 S22: 0.0639 S23: -0.0505 REMARK 3 S31: 0.0167 S32: -0.0433 S33: -0.1147 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 201 THROUGH 284 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.4869 -8.8739 -16.9025 REMARK 3 T TENSOR REMARK 3 T11: 0.1475 T22: 0.2354 REMARK 3 T33: 0.1967 T12: -0.0296 REMARK 3 T13: -0.0042 T23: 0.0322 REMARK 3 L TENSOR REMARK 3 L11: 3.3349 L22: 4.5561 REMARK 3 L33: 3.1096 L12: 0.7264 REMARK 3 L13: 0.6237 L23: 0.4200 REMARK 3 S TENSOR REMARK 3 S11: -0.0092 S12: -0.1712 S13: -0.0562 REMARK 3 S21: 0.0567 S22: 0.0519 S23: 0.1344 REMARK 3 S31: 0.0620 S32: -0.2157 S33: -0.0409 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 285 THROUGH 302 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.1982 1.0664 -13.6282 REMARK 3 T TENSOR REMARK 3 T11: 0.2043 T22: 0.3220 REMARK 3 T33: 0.3588 T12: -0.0027 REMARK 3 T13: -0.0013 T23: -0.0064 REMARK 3 L TENSOR REMARK 3 L11: 2.6501 L22: 6.1858 REMARK 3 L33: 7.1132 L12: 0.7272 REMARK 3 L13: 3.5100 L23: -2.7130 REMARK 3 S TENSOR REMARK 3 S11: -0.2015 S12: -0.2065 S13: 0.6728 REMARK 3 S21: 0.4081 S22: 0.0246 S23: 0.1881 REMARK 3 S31: -0.8638 S32: -0.8732 S33: 0.0604 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 8DDL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JUN-22. REMARK 100 THE DEPOSITION ID IS D_1000266439. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAY-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : F1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9686 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 : DIALS 3.8.0 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52678 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 102.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.50 REMARK 200 R MERGE (I) : 0.16900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.04 REMARK 200 R MERGE FOR SHELL (I) : 1.08200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 7ALH REMARK 200 REMARK 200 REMARK: THIN PLATES REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS, PH 8.5 AND 26% (V/V) PEG REMARK 280 SMEAR BROAD (BCS B11), VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K 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 33.91600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.16850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.73150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.16850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.91600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.73150 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: 3970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 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 1 REMARK 465 GLY A 2 REMARK 465 PHE A 3 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 VAL B 303 REMARK 465 THR B 304 REMARK 465 PHE B 305 REMARK 465 GLN B 306 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD CSO B 22 NZ LYS B 61 1.47 REMARK 500 O HOH A 744 O HOH A 757 1.96 REMARK 500 OD2 ASP A 197 O HOH A 601 2.12 REMARK 500 O HOH B 865 O HOH B 977 2.16 REMARK 500 O1 PEG B 703 O HOH B 801 2.17 REMARK 500 O HOH B 975 O HOH B 992 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 730 O HOH B 961 3554 2.14 REMARK 500 O HOH A 751 O HOH B 991 3654 2.16 REMARK 500 REMARK 500 REMARK: NULL 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 -131.50 48.72 REMARK 500 ASN A 51 62.49 -160.60 REMARK 500 ASN A 84 -125.46 55.57 REMARK 500 TYR A 154 -112.55 65.55 REMARK 500 ASP A 187 59.23 -90.82 REMARK 500 ASP B 33 -133.43 54.02 REMARK 500 ASN B 84 -119.03 50.34 REMARK 500 SER B 139 -159.70 -93.02 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 B1019 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 A 502 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 221 O REMARK 620 2 ASN A 221 OD1 75.2 REMARK 620 3 PHE A 223 O 108.9 100.8 REMARK 620 4 ASP A 263 O 149.1 127.2 89.1 REMARK 620 5 ASP A 263 OD1 90.1 164.7 79.5 68.1 REMARK 620 6 HOH A 604 O 74.6 104.5 154.4 78.6 75.2 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8DD6 RELATED DB: PDB REMARK 900 8DD6 CONTAINS THE SAME PROTEIN COMPLEXED WITH THE COVALENT REMARK 900 INHIBITOR GC376 DBREF1 8DDL A 1 306 UNP A0A7U3EDN3_SARS2 DBREF2 8DDL A A0A7U3EDN3 3242 3547 DBREF1 8DDL B 1 306 UNP A0A7U3EDN3_SARS2 DBREF2 8DDL B A0A7U3EDN3 3242 3547 SEQADV 8DDL ALA A 163 UNP A0A7U3EDN HIS 3404 ENGINEERED MUTATION SEQADV 8DDL ALA B 163 UNP A0A7U3EDN HIS 3404 ENGINEERED MUTATION 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 ALA 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 CSO 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 ALA 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 MODRES 8DDL CSO B 22 CYS MODIFIED RESIDUE HET CSO B 22 7 HET PGE A 501 24 HET NA A 502 1 HET PGE B 701 10 HET PEG B 702 7 HET PEG B 703 17 HET EDO B 704 10 HETNAM CSO S-HYDROXYCYSTEINE HETNAM PGE TRIETHYLENE GLYCOL HETNAM NA SODIUM ION HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 CSO C3 H7 N O3 S FORMUL 3 PGE 2(C6 H14 O4) FORMUL 4 NA NA 1+ FORMUL 6 PEG 2(C4 H10 O3) FORMUL 8 EDO C2 H6 O2 FORMUL 9 HOH *376(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 GLU A 47 ASN A 51 5 5 HELIX 4 AA4 ASN A 53 LYS A 61 1 9 HELIX 5 AA5 SER A 62 HIS A 64 5 3 HELIX 6 AA6 ILE A 200 ASN A 214 1 15 HELIX 7 AA7 THR A 226 TYR A 237 1 12 HELIX 8 AA8 THR A 243 GLY A 258 1 16 HELIX 9 AA9 ALA A 260 GLY A 275 1 16 HELIX 10 AB1 THR A 292 CYS A 300 1 9 HELIX 11 AB2 SER B 10 GLY B 15 1 6 HELIX 12 AB3 HIS B 41 CYS B 44 5 4 HELIX 13 AB4 SER B 46 ASN B 51 5 6 HELIX 14 AB5 ASN B 53 ARG B 60 1 8 HELIX 15 AB6 SER B 62 HIS B 64 5 3 HELIX 16 AB7 ILE B 200 ASN B 214 1 15 HELIX 17 AB8 THR B 226 TYR B 237 1 12 HELIX 18 AB9 THR B 243 GLY B 258 1 16 HELIX 19 AC1 ALA B 260 GLY B 275 1 16 HELIX 20 AC2 THR B 292 SER B 301 1 10 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 LYS A 100 PHE A 103 0 SHEET 2 AA2 5 CYS A 156 LEU A 167 1 O VAL A 157 N LYS A 100 SHEET 3 AA2 5 GLY A 146 ASP A 153 -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 4 LYS A 100 PHE A 103 0 SHEET 2 AA3 4 CYS A 156 LEU A 167 1 O VAL A 157 N LYS A 100 SHEET 3 AA3 4 VAL A 171 THR A 175 -1 O VAL A 171 N LEU A 167 SHEET 4 AA3 4 ILE A 136 LYS A 137 -1 N ILE A 136 O HIS A 172 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 CSO B 22 -1 N THR B 21 O LEU B 67 SHEET 4 AA4 7 THR B 25 LEU B 32 -1 O THR B 25 N CSO B 22 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 LYS B 100 PHE B 103 0 SHEET 2 AA5 5 CYS B 156 GLU B 166 1 O VAL B 157 N LYS B 100 SHEET 3 AA5 5 SER B 144 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 PRO B 122 ALA B 129 -1 O SER B 123 N ALA B 116 SHEET 1 AA6 3 LYS B 100 PHE B 103 0 SHEET 2 AA6 3 CYS B 156 GLU B 166 1 O VAL B 157 N LYS B 100 SHEET 3 AA6 3 HIS B 172 THR B 175 -1 O ALA B 173 N HIS B 164 SSBOND 1 CYS A 117 CYS A 145 1555 1555 2.06 SSBOND 2 CYS B 117 CYS B 145 1555 1555 2.05 LINK C THR B 21 N CSO B 22 1555 1555 1.33 LINK C CSO B 22 N GLY B 23 1555 1555 1.33 LINK O ASN A 221 NA NA A 502 1555 1555 2.72 LINK OD1 ASN A 221 NA NA A 502 1555 1555 2.18 LINK O PHE A 223 NA NA A 502 1555 1555 2.40 LINK O ASP A 263 NA NA A 502 1555 1555 2.81 LINK OD1 ASP A 263 NA NA A 502 1555 1555 2.14 LINK NA NA A 502 O HOH A 604 1555 1555 2.42 CRYST1 67.832 101.463 102.337 90.00 90.00 90.00 P 21 21 21 4 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 0.014742 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009856 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009772 0.00000