HEADER VIRAL PROTEIN 03-NOV-21 7Q5E TITLE CRYSTAL STRUCTURE OF F2F-2020209-00X BOUND TO THE MAIN PROTEASE TITLE 2 (3CLPRO/MPRO) OF SARS-COV-2. COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3C-LIKE PROTEINASE; 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_COMMON: 2019-NCOV, SARS-COV-2; 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 EXPDTA X-RAY DIFFRACTION AUTHOR E.COSTANZI,N.DEMITRI,P.STORICI REVDAT 2 31-JAN-24 7Q5E 1 REMARK REVDAT 1 23-NOV-22 7Q5E 0 JRNL AUTH S.PELLICCIA,C.CERCHIA,F.ESPOSITO,R.CANNALIRE,A.CORONA, JRNL AUTH 2 E.COSTANZI,M.KUZIKOV,P.GRIBBON,A.ZALIANI,M.BRINDISI, JRNL AUTH 3 P.STORICI,E.TRAMONTANO,V.SUMMA JRNL TITL EASY ACCESS TO ALPHA-KETOAMIDES AS SARS-COV-2 AND MERS M PRO JRNL TITL 2 INHIBITORS VIA THE PADAM OXIDATION ROUTE. JRNL REF EUR.J.MED.CHEM. V. 244 14853 2022 JRNL REFN ISSN 0223-5234 JRNL PMID 36332546 JRNL DOI 10.1016/J.EJMECH.2022.114853 REMARK 2 REMARK 2 RESOLUTION. 1.67 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) : 1.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.04 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 83196 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 4231 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 46.0400 - 5.1900 0.99 2834 143 0.1741 0.1640 REMARK 3 2 5.1900 - 4.1200 1.00 2712 162 0.1273 0.1495 REMARK 3 3 4.1200 - 3.6000 1.00 2691 141 0.1442 0.1789 REMARK 3 4 3.6000 - 3.2700 1.00 2636 177 0.1568 0.1853 REMARK 3 5 3.2700 - 3.0300 1.00 2653 151 0.1764 0.1918 REMARK 3 6 3.0300 - 2.8600 1.00 2616 172 0.1706 0.2178 REMARK 3 7 2.8600 - 2.7100 1.00 2631 162 0.1666 0.1768 REMARK 3 8 2.7100 - 2.5900 1.00 2631 145 0.1727 0.1865 REMARK 3 9 2.5900 - 2.4900 1.00 2642 146 0.1702 0.2115 REMARK 3 10 2.4900 - 2.4100 1.00 2634 132 0.1687 0.2144 REMARK 3 11 2.4100 - 2.3300 1.00 2621 145 0.1665 0.1832 REMARK 3 12 2.3300 - 2.2700 1.00 2622 137 0.1614 0.1963 REMARK 3 13 2.2700 - 2.2100 1.00 2632 132 0.1683 0.1829 REMARK 3 14 2.2100 - 2.1500 1.00 2637 120 0.1649 0.1525 REMARK 3 15 2.1500 - 2.1000 1.00 2627 125 0.1651 0.2099 REMARK 3 16 2.1000 - 2.0600 1.00 2621 126 0.1794 0.2150 REMARK 3 17 2.0600 - 2.0200 1.00 2641 144 0.1794 0.2073 REMARK 3 18 2.0200 - 1.9800 1.00 2609 145 0.1789 0.2228 REMARK 3 19 1.9800 - 1.9400 1.00 2590 132 0.1953 0.2132 REMARK 3 20 1.9400 - 1.9100 1.00 2633 135 0.2121 0.2395 REMARK 3 21 1.9100 - 1.8800 1.00 2581 145 0.2178 0.2522 REMARK 3 22 1.8800 - 1.8500 1.00 2627 123 0.2092 0.2048 REMARK 3 23 1.8500 - 1.8200 1.00 2641 130 0.2123 0.2288 REMARK 3 24 1.8200 - 1.8000 1.00 2568 148 0.2133 0.2500 REMARK 3 25 1.8000 - 1.7700 1.00 2600 152 0.2351 0.2636 REMARK 3 26 1.7700 - 1.7500 1.00 2607 145 0.2413 0.2899 REMARK 3 27 1.7500 - 1.7300 1.00 2618 123 0.2431 0.3028 REMARK 3 28 1.7300 - 1.7100 1.00 2570 152 0.2641 0.2599 REMARK 3 29 1.7100 - 1.6900 1.00 2614 125 0.2698 0.3123 REMARK 3 30 1.6900 - 1.6700 1.00 2626 116 0.2833 0.2930 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) : 0.165 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.206 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.64 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.45 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 : 0.010 4958 REMARK 3 ANGLE : 1.013 6744 REMARK 3 CHIRALITY : 0.061 755 REMARK 3 PLANARITY : 0.008 879 REMARK 3 DIHEDRAL : 15.001 1799 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 12 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.6937 -7.3812 -18.1845 REMARK 3 T TENSOR REMARK 3 T11: 0.1671 T22: 0.1578 REMARK 3 T33: 0.1682 T12: 0.0198 REMARK 3 T13: -0.0024 T23: 0.0031 REMARK 3 L TENSOR REMARK 3 L11: 3.7674 L22: 0.9210 REMARK 3 L33: 2.4984 L12: 0.2837 REMARK 3 L13: -1.4567 L23: -0.2045 REMARK 3 S TENSOR REMARK 3 S11: -0.0403 S12: -0.1377 S13: -0.0246 REMARK 3 S21: 0.0230 S22: -0.0305 S23: -0.0697 REMARK 3 S31: 0.0113 S32: 0.2284 S33: 0.0769 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 91 ) REMARK 3 ORIGIN FOR THE GROUP (A): 32.9555 -6.1310 -24.5585 REMARK 3 T TENSOR REMARK 3 T11: 0.1837 T22: 0.2894 REMARK 3 T33: 0.2403 T12: 0.0495 REMARK 3 T13: 0.0080 T23: 0.0313 REMARK 3 L TENSOR REMARK 3 L11: 4.4766 L22: 0.5618 REMARK 3 L33: 5.6703 L12: 0.8088 REMARK 3 L13: -0.3082 L23: -0.9580 REMARK 3 S TENSOR REMARK 3 S11: -0.0740 S12: -0.2480 S13: 0.0009 REMARK 3 S21: 0.1128 S22: -0.0275 S23: -0.1047 REMARK 3 S31: -0.2982 S32: 0.4559 S33: 0.0691 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 92 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.7656 -16.4095 -21.1286 REMARK 3 T TENSOR REMARK 3 T11: 0.2111 T22: 0.1404 REMARK 3 T33: 0.2371 T12: 0.0360 REMARK 3 T13: 0.0523 T23: 0.0109 REMARK 3 L TENSOR REMARK 3 L11: 4.5043 L22: 2.1294 REMARK 3 L33: 6.6895 L12: -2.2665 REMARK 3 L13: 3.7812 L23: -2.6054 REMARK 3 S TENSOR REMARK 3 S11: -0.0500 S12: 0.0704 S13: -0.2287 REMARK 3 S21: -0.0137 S22: -0.1153 S23: 0.0237 REMARK 3 S31: 0.3074 S32: 0.3801 S33: 0.0888 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 200 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.5674 -3.7688 -27.4150 REMARK 3 T TENSOR REMARK 3 T11: 0.1500 T22: 0.1282 REMARK 3 T33: 0.1800 T12: 0.0117 REMARK 3 T13: -0.0080 T23: 0.0129 REMARK 3 L TENSOR REMARK 3 L11: 3.6636 L22: 0.4785 REMARK 3 L33: 3.0366 L12: 0.1961 REMARK 3 L13: -0.2901 L23: 0.2866 REMARK 3 S TENSOR REMARK 3 S11: -0.0061 S12: 0.2397 S13: 0.1313 REMARK 3 S21: -0.0357 S22: -0.0360 S23: -0.0091 REMARK 3 S31: -0.1325 S32: 0.1143 S33: 0.0383 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 201 THROUGH 274 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.8005 -8.4113 -35.6232 REMARK 3 T TENSOR REMARK 3 T11: 0.1650 T22: 0.2611 REMARK 3 T33: 0.2148 T12: -0.0001 REMARK 3 T13: -0.0251 T23: -0.0043 REMARK 3 L TENSOR REMARK 3 L11: 1.4917 L22: 1.7842 REMARK 3 L33: 1.8135 L12: -0.0471 REMARK 3 L13: 0.3017 L23: -0.0594 REMARK 3 S TENSOR REMARK 3 S11: 0.0134 S12: -0.0565 S13: -0.0925 REMARK 3 S21: -0.0670 S22: 0.0016 S23: 0.1291 REMARK 3 S31: 0.0214 S32: -0.0458 S33: -0.0192 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 275 THROUGH 306 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.0763 -5.9373 -24.2166 REMARK 3 T TENSOR REMARK 3 T11: 0.1829 T22: 0.3247 REMARK 3 T33: 0.2389 T12: -0.0156 REMARK 3 T13: 0.0063 T23: -0.0312 REMARK 3 L TENSOR REMARK 3 L11: 2.4516 L22: 4.3164 REMARK 3 L33: 3.1987 L12: -2.1338 REMARK 3 L13: 0.7494 L23: -0.1284 REMARK 3 S TENSOR REMARK 3 S11: -0.0738 S12: -0.2568 S13: -0.2260 REMARK 3 S21: 0.2689 S22: 0.0826 S23: 0.4518 REMARK 3 S31: -0.0306 S32: -0.3895 S33: 0.0021 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.1002 -10.8341 -1.2828 REMARK 3 T TENSOR REMARK 3 T11: 0.2069 T22: 0.1235 REMARK 3 T33: 0.1839 T12: 0.0016 REMARK 3 T13: 0.0002 T23: 0.0040 REMARK 3 L TENSOR REMARK 3 L11: 2.7432 L22: 1.1964 REMARK 3 L33: 3.1414 L12: -0.2507 REMARK 3 L13: -0.5349 L23: -0.7390 REMARK 3 S TENSOR REMARK 3 S11: -0.0305 S12: -0.1658 S13: -0.2873 REMARK 3 S21: -0.0061 S22: -0.0050 S23: 0.0477 REMARK 3 S31: 0.3353 S32: -0.0091 S33: 0.0358 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 44 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.1272 -13.6559 8.5525 REMARK 3 T TENSOR REMARK 3 T11: 0.2995 T22: 0.2903 REMARK 3 T33: 0.2585 T12: -0.0314 REMARK 3 T13: -0.0079 T23: 0.0816 REMARK 3 L TENSOR REMARK 3 L11: 3.3917 L22: 2.7807 REMARK 3 L33: 3.2666 L12: -0.7287 REMARK 3 L13: 0.2675 L23: -0.7484 REMARK 3 S TENSOR REMARK 3 S11: 0.0202 S12: -0.5449 S13: -0.6582 REMARK 3 S21: 0.0298 S22: 0.0705 S23: 0.3710 REMARK 3 S31: 0.5794 S32: -0.2342 S33: -0.0211 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 111 THROUGH 200 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.4834 -2.9855 -4.0707 REMARK 3 T TENSOR REMARK 3 T11: 0.1422 T22: 0.1151 REMARK 3 T33: 0.1353 T12: -0.0121 REMARK 3 T13: 0.0060 T23: 0.0196 REMARK 3 L TENSOR REMARK 3 L11: 2.4519 L22: 2.2717 REMARK 3 L33: 3.0469 L12: -0.6380 REMARK 3 L13: -0.4794 L23: -0.2269 REMARK 3 S TENSOR REMARK 3 S11: 0.0729 S12: -0.0110 S13: -0.0456 REMARK 3 S21: -0.0641 S22: -0.0278 S23: 0.0907 REMARK 3 S31: 0.0261 S32: -0.2204 S33: -0.0305 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 201 THROUGH 226 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.6436 20.8025 -20.7210 REMARK 3 T TENSOR REMARK 3 T11: 0.3593 T22: 0.1733 REMARK 3 T33: 0.2543 T12: 0.0007 REMARK 3 T13: 0.1319 T23: 0.0143 REMARK 3 L TENSOR REMARK 3 L11: 0.8721 L22: 3.1502 REMARK 3 L33: 1.1803 L12: -0.0300 REMARK 3 L13: 0.5319 L23: -1.6904 REMARK 3 S TENSOR REMARK 3 S11: 0.1275 S12: 0.1881 S13: 0.1627 REMARK 3 S21: -0.2612 S22: -0.0171 S23: -0.2817 REMARK 3 S31: -0.3540 S32: -0.0857 S33: -0.0895 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 227 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.9318 18.7872 -15.4608 REMARK 3 T TENSOR REMARK 3 T11: 0.4305 T22: 0.2215 REMARK 3 T33: 0.2804 T12: -0.0133 REMARK 3 T13: 0.1114 T23: -0.0033 REMARK 3 L TENSOR REMARK 3 L11: 2.1537 L22: 4.1085 REMARK 3 L33: 3.9127 L12: -0.3104 REMARK 3 L13: -1.7586 L23: 0.6665 REMARK 3 S TENSOR REMARK 3 S11: 0.3544 S12: 0.0545 S13: 0.4217 REMARK 3 S21: -0.2133 S22: 0.0718 S23: -0.1201 REMARK 3 S31: -1.0087 S32: 0.0908 S33: -0.3291 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 302 THROUGH 305 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.5364 3.5470 -9.6834 REMARK 3 T TENSOR REMARK 3 T11: 0.6612 T22: 0.8587 REMARK 3 T33: 0.6639 T12: -0.0153 REMARK 3 T13: 0.1445 T23: -0.1696 REMARK 3 L TENSOR REMARK 3 L11: 6.9214 L22: 6.8995 REMARK 3 L33: 5.2413 L12: -6.2747 REMARK 3 L13: -5.9520 L23: 5.7818 REMARK 3 S TENSOR REMARK 3 S11: -0.5204 S12: -0.7445 S13: -0.6330 REMARK 3 S21: 1.3135 S22: 0.3558 S23: 1.9859 REMARK 3 S31: -0.8201 S32: -1.7151 S33: 0.1529 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 7Q5E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-NOV-21. REMARK 100 THE DEPOSITION ID IS D_1292119034. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUL-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) : 1.000 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 : 83303 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.670 REMARK 200 RESOLUTION RANGE LOW (A) : 101.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 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 (%): 53.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.12M 1,6-HEXANEDIOL 0.12M 1-BUTANOL REMARK 280 0.12M 1,2-PROPANEDIOL 0.12M 2-PROPANOL 0.12M 1,4-BUTANEDIOL REMARK 280 0.12M 1,3-PROPANEDIOL, 0.1M TRIS/BICINE PH 8.5, 20% V/V PEG 500 REMARK 280 MME 10 % W/V PEG 20000 0.1 M BUFFER SYSTEM 3 8.5 30 % V/V REMARK 280 PRECIPITANT MIX 1, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 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 33.98900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.71850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.50850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.71850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.98900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.50850 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: 3190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 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 -130.47 53.74 REMARK 500 ASN A 51 55.99 -141.30 REMARK 500 ASN A 84 -122.61 54.73 REMARK 500 ASP B 33 -132.43 52.55 REMARK 500 ASN B 84 -126.11 53.39 REMARK 500 TYR B 154 -106.28 59.46 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 842 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH A 843 DISTANCE = 6.40 ANGSTROMS REMARK 525 HOH A 844 DISTANCE = 6.62 ANGSTROMS REMARK 525 HOH A 845 DISTANCE = 6.68 ANGSTROMS REMARK 525 HOH B 746 DISTANCE = 6.06 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 402 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 221 O REMARK 620 2 ASN B 221 OD1 69.2 REMARK 620 3 PHE B 223 O 109.7 82.9 REMARK 620 4 ASP B 263 O 159.1 108.8 90.3 REMARK 620 5 ASP B 263 OD1 108.5 176.2 95.2 74.4 REMARK 620 6 HOH B 536 O 83.0 89.6 161.6 76.2 93.2 REMARK 620 N 1 2 3 4 5 DBREF 7Q5E A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 7Q5E 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 90I A 401 74 HET CL A 402 1 HET CL A 403 1 HET 90I B 401 74 HET NA B 402 1 HETNAM 90I BENZYL (S)-2-(((S)-3,4-DIOXO-1-((S)-2-OXOPYRROLIDIN-3- HETNAM 2 90I YL)-4-(PHENETHYLAMINO)BUTAN-2-YL)CARBAMOYL) HETNAM 3 90I PYRROLIDINE-1-CARBOXYLATE HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETSYN 90I (PHENYLMETHYL) (2S)-2-[[(2S)-3,4-BIS(OXIDANYLIDENE)-1- HETSYN 2 90I [(3S)-2-OXIDANYLIDENEPYRROLIDIN-3-YL]-4-(2- HETSYN 3 90I PHENYLETHYLAMINO)BUTAN-2-YL]CARBAMOYL]PYRROLIDINE-1- HETSYN 4 90I CARBOXYLATE FORMUL 3 90I 2(C29 H36 N4 O6) FORMUL 4 CL 2(CL 1-) FORMUL 7 NA NA 1+ FORMUL 8 HOH *591(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 SER A 46 LEU A 50 5 5 HELIX 4 AA4 ASN A 53 ARG A 60 1 8 HELIX 5 AA5 LYS A 61 HIS A 64 5 4 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 MET A 235 1 10 HELIX 9 AA9 LYS A 236 ASN A 238 5 3 HELIX 10 AB1 THR A 243 LEU A 250 1 8 HELIX 11 AB2 LEU A 250 GLY A 258 1 9 HELIX 12 AB3 ALA A 260 GLY A 275 1 16 HELIX 13 AB4 THR A 292 CYS A 300 1 9 HELIX 14 AB5 SER B 10 GLY B 15 1 6 HELIX 15 AB6 HIS B 41 CYS B 44 5 4 HELIX 16 AB7 ASN B 53 LYS B 61 1 9 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 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 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 GLN B 19 O GLN B 69 SHEET 4 AA4 7 THR B 25 LEU B 32 -1 O LEU B 27 N VAL B 20 SHEET 5 AA4 7 VAL B 35 PRO B 39 -1 O TYR B 37 N LEU B 30 SHEET 6 AA4 7 VAL B 86 VAL B 91 -1 O LEU B 87 N CYS B 38 SHEET 7 AA4 7 VAL B 77 GLN B 83 -1 N 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 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 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 MET B 165 LINK SG CYS A 145 C19 90I A 401 1555 1555 1.81 LINK SG CYS B 145 C19 90I B 401 1555 1555 1.81 LINK O ASN B 221 NA NA B 402 1555 1555 2.63 LINK OD1 ASN B 221 NA NA B 402 1555 1555 2.63 LINK O PHE B 223 NA NA B 402 1555 1555 2.31 LINK O ASP B 263 NA NA B 402 1555 1555 3.10 LINK OD1 ASP B 263 NA NA B 402 1555 1555 2.11 LINK NA NA B 402 O HOH B 536 1555 1555 2.32 CRYST1 67.978 101.017 103.437 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 0.014711 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009899 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009668 0.00000