HEADER VIRAL PROTEIN 28-MAR-23 8OKL TITLE CRYSTAL STRUCTURE OF F2F-2020185-01X BOUND TO THE MAIN PROTEASE TITLE 2 (3CLPRO/MPRO) OF SARS-COV-2. 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 2 07-FEB-24 8OKL 1 REMARK REVDAT 1 03-MAY-23 8OKL 0 JRNL AUTH I.STEFANELLI,A.CORONA,C.CERCHIA,E.CASSESE,S.IMPROTA, JRNL AUTH 2 E.COSTANZI,S.PELLICCIA,S.MORASSO,F.ESPOSITO,A.PAULIS, JRNL AUTH 3 S.SCOGNAMIGLIO,F.S.DI LEVA,P.STORICI,M.BRINDISI, JRNL AUTH 4 E.TRAMONTANO,R.CANNALIRE,V.SUMMA JRNL TITL BROAD-SPECTRUM CORONAVIRUS 3C-LIKE PROTEASE PEPTIDOMIMETIC JRNL TITL 2 INHIBITORS EFFECTIVELY BLOCK SARS-COV-2 REPLICATION IN JRNL TITL 3 CELLS: DESIGN, SYNTHESIS, BIOLOGICAL EVALUATION, AND X-RAY JRNL TITL 4 STRUCTURE DETERMINATION. JRNL REF EUR.J.MED.CHEM. V. 253 15311 2023 JRNL REFN ISSN 0223-5234 JRNL PMID 37043904 JRNL DOI 10.1016/J.EJMECH.2023.115311 REMARK 2 REMARK 2 RESOLUTION. 1.50 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.30 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 112206 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.150 REMARK 3 FREE R VALUE TEST SET COUNT : 5777 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 41.3000 - 4.6700 0.99 3766 228 0.1626 0.1730 REMARK 3 2 4.6700 - 3.7100 1.00 3641 212 0.1260 0.1543 REMARK 3 3 3.7100 - 3.2400 1.00 3610 184 0.1489 0.1574 REMARK 3 4 3.2400 - 2.9400 1.00 3618 168 0.1572 0.1920 REMARK 3 5 2.9400 - 2.7300 1.00 3579 200 0.1582 0.2055 REMARK 3 6 2.7300 - 2.5700 1.00 3589 177 0.1578 0.1776 REMARK 3 7 2.5700 - 2.4400 1.00 3532 205 0.1509 0.1710 REMARK 3 8 2.4400 - 2.3400 1.00 3594 170 0.1479 0.1855 REMARK 3 9 2.3400 - 2.2500 1.00 3557 185 0.1432 0.1803 REMARK 3 10 2.2500 - 2.1700 1.00 3567 196 0.1464 0.1765 REMARK 3 11 2.1700 - 2.1000 1.00 3550 185 0.1466 0.1727 REMARK 3 12 2.1000 - 2.0400 1.00 3498 208 0.1596 0.1652 REMARK 3 13 2.0400 - 1.9900 1.00 3557 189 0.1703 0.1952 REMARK 3 14 1.9900 - 1.9400 1.00 3530 164 0.1616 0.1861 REMARK 3 15 1.9400 - 1.8900 1.00 3523 228 0.1649 0.1843 REMARK 3 16 1.8900 - 1.8500 1.00 3552 179 0.1714 0.2035 REMARK 3 17 1.8500 - 1.8200 1.00 3535 179 0.1818 0.2301 REMARK 3 18 1.8200 - 1.7800 1.00 3544 176 0.1880 0.1921 REMARK 3 19 1.7800 - 1.7500 1.00 3515 183 0.1957 0.2136 REMARK 3 20 1.7500 - 1.7200 1.00 3548 188 0.2054 0.2408 REMARK 3 21 1.7200 - 1.6900 1.00 3474 188 0.2193 0.2507 REMARK 3 22 1.6900 - 1.6700 1.00 3563 194 0.2294 0.2531 REMARK 3 23 1.6700 - 1.6400 1.00 3503 204 0.2424 0.2805 REMARK 3 24 1.6400 - 1.6200 1.00 3491 176 0.2382 0.2420 REMARK 3 25 1.6200 - 1.6000 1.00 3526 205 0.2439 0.2609 REMARK 3 26 1.6000 - 1.5800 1.00 3480 196 0.2521 0.2681 REMARK 3 27 1.5800 - 1.5600 1.00 3510 210 0.2563 0.3003 REMARK 3 28 1.5600 - 1.5400 1.00 3497 217 0.2688 0.2728 REMARK 3 29 1.5400 - 1.5200 1.00 3481 211 0.2797 0.2809 REMARK 3 30 1.5200 - 1.5000 1.00 3499 172 0.2857 0.2807 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) : 0.156 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.323 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.68 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.18 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 : 0.009 4937 REMARK 3 ANGLE : 1.048 6717 REMARK 3 CHIRALITY : 0.058 757 REMARK 3 PLANARITY : 0.009 873 REMARK 3 DIHEDRAL : 14.178 1793 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): 18.2707 -6.6251 -18.5040 REMARK 3 T TENSOR REMARK 3 T11: 0.1460 T22: 0.1470 REMARK 3 T33: 0.1553 T12: 0.0118 REMARK 3 T13: 0.0057 T23: 0.0063 REMARK 3 L TENSOR REMARK 3 L11: 2.0648 L22: 0.6773 REMARK 3 L33: 1.9201 L12: -0.2546 REMARK 3 L13: -0.5248 L23: -0.0140 REMARK 3 S TENSOR REMARK 3 S11: 0.0111 S12: -0.0454 S13: 0.0171 REMARK 3 S21: 0.0052 S22: -0.0103 S23: -0.0480 REMARK 3 S31: 0.0109 S32: 0.3014 S33: 0.0024 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 91 ) REMARK 3 ORIGIN FOR THE GROUP (A): 33.1914 -5.2258 -24.8728 REMARK 3 T TENSOR REMARK 3 T11: 0.1528 T22: 0.3669 REMARK 3 T33: 0.2377 T12: 0.0248 REMARK 3 T13: 0.0081 T23: 0.0309 REMARK 3 L TENSOR REMARK 3 L11: 1.8553 L22: 0.6276 REMARK 3 L33: 3.0982 L12: 0.0956 REMARK 3 L13: -0.4202 L23: -0.5690 REMARK 3 S TENSOR REMARK 3 S11: -0.0313 S12: -0.2044 S13: 0.1771 REMARK 3 S21: 0.0676 S22: -0.0285 S23: -0.0901 REMARK 3 S31: -0.1333 S32: 0.5100 S33: 0.0863 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 92 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.0938 -15.6703 -21.3646 REMARK 3 T TENSOR REMARK 3 T11: 0.1759 T22: 0.1319 REMARK 3 T33: 0.1887 T12: 0.0382 REMARK 3 T13: 0.0288 T23: 0.0143 REMARK 3 L TENSOR REMARK 3 L11: 2.8784 L22: 1.6697 REMARK 3 L33: 4.5693 L12: -1.0554 REMARK 3 L13: 2.5228 L23: -1.2044 REMARK 3 S TENSOR REMARK 3 S11: -0.0721 S12: -0.0066 S13: -0.1420 REMARK 3 S21: 0.0297 S22: -0.0009 S23: -0.0416 REMARK 3 S31: 0.2072 S32: 0.3197 S33: -0.0061 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 166 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.6171 -4.3501 -23.3908 REMARK 3 T TENSOR REMARK 3 T11: 0.1205 T22: 0.0927 REMARK 3 T33: 0.1474 T12: -0.0048 REMARK 3 T13: 0.0080 T23: 0.0046 REMARK 3 L TENSOR REMARK 3 L11: 2.2654 L22: 0.3920 REMARK 3 L33: 2.8659 L12: -0.2567 REMARK 3 L13: 0.3945 L23: 0.2942 REMARK 3 S TENSOR REMARK 3 S11: 0.0212 S12: -0.0050 S13: -0.0191 REMARK 3 S21: -0.0089 S22: -0.0351 S23: 0.0296 REMARK 3 S31: 0.0322 S32: 0.0975 S33: 0.0332 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 167 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.2954 -2.8935 -33.5674 REMARK 3 T TENSOR REMARK 3 T11: 0.1441 T22: 0.1439 REMARK 3 T33: 0.1446 T12: -0.0001 REMARK 3 T13: -0.0049 T23: 0.0219 REMARK 3 L TENSOR REMARK 3 L11: 2.6331 L22: 0.3836 REMARK 3 L33: 0.6975 L12: 0.1635 REMARK 3 L13: -0.1680 L23: -0.0834 REMARK 3 S TENSOR REMARK 3 S11: -0.0129 S12: 0.2822 S13: 0.1900 REMARK 3 S21: -0.0451 S22: 0.0049 S23: -0.0415 REMARK 3 S31: -0.0530 S32: 0.0615 S33: -0.0046 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 260 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.3786 -9.1468 -37.2299 REMARK 3 T TENSOR REMARK 3 T11: 0.1485 T22: 0.1695 REMARK 3 T33: 0.1709 T12: -0.0030 REMARK 3 T13: -0.0245 T23: 0.0012 REMARK 3 L TENSOR REMARK 3 L11: 1.3859 L22: 1.4926 REMARK 3 L33: 2.0223 L12: 0.2049 REMARK 3 L13: -0.2768 L23: -0.1268 REMARK 3 S TENSOR REMARK 3 S11: -0.0422 S12: 0.0920 S13: -0.0065 REMARK 3 S21: -0.0682 S22: 0.0330 S23: 0.0542 REMARK 3 S31: 0.0548 S32: -0.0984 S33: 0.0117 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 261 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.6074 -4.0937 -29.6583 REMARK 3 T TENSOR REMARK 3 T11: 0.1414 T22: 0.1647 REMARK 3 T33: 0.1447 T12: -0.0011 REMARK 3 T13: 0.0141 T23: -0.0082 REMARK 3 L TENSOR REMARK 3 L11: 1.5956 L22: 1.8769 REMARK 3 L33: 2.0728 L12: -0.1849 REMARK 3 L13: 0.4319 L23: -0.2464 REMARK 3 S TENSOR REMARK 3 S11: -0.0446 S12: -0.0279 S13: 0.0716 REMARK 3 S21: 0.1312 S22: 0.0433 S23: 0.0839 REMARK 3 S31: -0.1531 S32: -0.1232 S33: -0.0080 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 200 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.1031 -8.4586 0.4918 REMARK 3 T TENSOR REMARK 3 T11: 0.1429 T22: 0.1828 REMARK 3 T33: 0.1322 T12: -0.0386 REMARK 3 T13: 0.0192 T23: 0.0396 REMARK 3 L TENSOR REMARK 3 L11: 2.0043 L22: 1.0252 REMARK 3 L33: 2.2301 L12: -0.8839 REMARK 3 L13: 0.9015 L23: -0.4076 REMARK 3 S TENSOR REMARK 3 S11: -0.0229 S12: -0.3971 S13: -0.2151 REMARK 3 S21: 0.0438 S22: 0.1327 S23: 0.1203 REMARK 3 S31: 0.2413 S32: -0.3519 S33: -0.0177 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 201 THROUGH 306 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.6985 18.5957 -16.6180 REMARK 3 T TENSOR REMARK 3 T11: 0.2195 T22: 0.1104 REMARK 3 T33: 0.1591 T12: 0.0078 REMARK 3 T13: 0.0471 T23: -0.0153 REMARK 3 L TENSOR REMARK 3 L11: 0.9837 L22: 2.0126 REMARK 3 L33: 1.7031 L12: -0.0265 REMARK 3 L13: -0.6008 L23: -0.7862 REMARK 3 S TENSOR REMARK 3 S11: 0.0911 S12: -0.0468 S13: 0.1768 REMARK 3 S21: 0.1007 S22: 0.0246 S23: 0.0084 REMARK 3 S31: -0.3630 S32: -0.0244 S33: -0.0889 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 8OKL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-MAR-23. REMARK 100 THE DEPOSITION ID IS D_1292129454. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-MAR-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) : 0.99999 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 : 112319 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 56.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.800 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 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 (%): 52.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M 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, 0.1 M HEPES/ REMARK 280 MOPS PH 7.5, 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 33.98800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.00100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.71650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.00100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.98800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.71650 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 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 GLY A 302 REMARK 465 VAL A 303 REMARK 465 THR A 304 REMARK 465 PHE A 305 REMARK 465 GLN A 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 -130.01 53.54 REMARK 500 ASN A 84 -120.81 50.05 REMARK 500 TYR A 154 -139.52 69.91 REMARK 500 ASP B 33 -131.42 51.06 REMARK 500 GLU B 55 -56.02 -29.93 REMARK 500 ASN B 84 -126.00 53.92 REMARK 500 TYR B 154 -100.59 61.62 REMARK 500 PRO B 184 46.31 -83.95 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 862 DISTANCE = 5.81 ANGSTROMS REMARK 525 HOH A 863 DISTANCE = 5.96 ANGSTROMS REMARK 525 HOH A 864 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH A 865 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH A 866 DISTANCE = 6.72 ANGSTROMS REMARK 525 HOH A 867 DISTANCE = 6.82 ANGSTROMS REMARK 525 HOH A 868 DISTANCE = 6.83 ANGSTROMS REMARK 525 HOH A 869 DISTANCE = 7.12 ANGSTROMS REMARK 525 HOH A 870 DISTANCE = 7.28 ANGSTROMS REMARK 525 HOH A 871 DISTANCE = 10.88 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 405 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 178 OE1 REMARK 620 2 HOH A 515 O 85.4 REMARK 620 3 HOH A 760 O 118.8 134.2 REMARK 620 4 HOH A 795 O 111.1 121.0 87.8 REMARK 620 5 HOH A 810 O 106.7 67.0 129.2 54.1 REMARK 620 N 1 2 3 4 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 112.4 97.0 REMARK 620 4 ASP B 263 O 150.8 122.5 89.8 REMARK 620 5 ASP B 263 OD1 91.3 165.8 92.1 68.2 REMARK 620 6 HOH B 532 O 76.2 100.2 162.3 77.6 71.8 REMARK 620 N 1 2 3 4 5 DBREF 8OKL A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 8OKL 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 83N A 401 73 HET EDO A 402 10 HET FMT A 403 5 HET FMT A 404 5 HET NA A 405 1 HET CL A 406 1 HET 83N B 401 73 HET MPD B 402 22 HET NA B 403 1 HET CL B 404 1 HETNAM 83N TERT-BUTYL-N-[(2S)-1-[(2S,4S)-4-METHOXY-2-[[(2S)-1- HETNAM 2 83N OXIDANYL-3-[(3S)-2-OXIDANYLIDENEPYRROLIDIN-3- HETNAM 3 83N YL]PROPAN-2-YL]CARBAMOYL]PYRROLIDIN-1-YL]-3-METHYL-1- HETNAM 4 83N OXIDANYLIDENE-BUTAN-2-YL]CARBAMATE HETNAM EDO 1,2-ETHANEDIOL HETNAM FMT FORMIC ACID HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETSYN 83N TERT-BUTYL-N-[(2S)-1-[(2S,4S)-4-METHOXY-2-[[(2S)-1- HETSYN 2 83N OXIDANYLIDENE-3-[(3S)-2-OXIDANYLIDENEPYRROLIDIN-3- HETSYN 3 83N YL]PROPAN-2-YL]CARBAMOYL]PYRROLIDIN-1-YL]-3-METHYL-1- HETSYN 4 83N OXIDANYLIDENE-BUTAN-2-YL]CARBAMATE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 83N 2(C23 H40 N4 O7) FORMUL 4 EDO C2 H6 O2 FORMUL 5 FMT 2(C H2 O2) FORMUL 7 NA 2(NA 1+) FORMUL 8 CL 2(CL 1-) FORMUL 10 MPD C6 H14 O2 FORMUL 13 HOH *666(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 200 ASN A 214 1 15 HELIX 7 AA7 THR A 226 LYS A 236 1 11 HELIX 8 AA8 THR A 243 LEU A 250 1 8 HELIX 9 AA9 LEU A 250 GLY A 258 1 9 HELIX 10 AB1 ALA A 260 GLY A 275 1 16 HELIX 11 AB2 THR A 292 SER A 301 1 10 HELIX 12 AB3 SER B 10 GLY B 15 1 6 HELIX 13 AB4 HIS B 41 CYS B 44 5 4 HELIX 14 AB5 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 LEU B 250 1 8 HELIX 19 AC1 LEU B 250 GLY B 258 1 9 HELIX 20 AC2 ALA B 260 GLY B 275 1 16 HELIX 21 AC3 THR B 292 GLY B 302 1 11 SHEET 1 AA1 7 VAL A 73 LEU A 75 0 SHEET 2 AA1 7 PHE A 66 ALA A 70 -1 N ALA A 70 O VAL A 73 SHEET 3 AA1 7 MET A 17 CYS A 22 -1 N THR A 21 O LEU A 67 SHEET 4 AA1 7 THR A 25 LEU A 32 -1 O LEU A 27 N VAL A 20 SHEET 5 AA1 7 VAL A 35 PRO A 39 -1 O TYR A 37 N LEU A 30 SHEET 6 AA1 7 VAL A 86 VAL A 91 -1 O LEU A 87 N CYS A 38 SHEET 7 AA1 7 VAL A 77 GLN A 83 -1 N SER A 81 O LYS A 88 SHEET 1 AA2 5 TYR A 101 PHE A 103 0 SHEET 2 AA2 5 VAL A 157 GLU A 166 1 O PHE A 159 N LYS A 102 SHEET 3 AA2 5 VAL A 148 ASN A 151 -1 N ASN A 151 O SER A 158 SHEET 4 AA2 5 THR A 111 TYR A 118 -1 N SER A 113 O PHE A 150 SHEET 5 AA2 5 SER A 121 ALA A 129 -1 O SER A 123 N ALA A 116 SHEET 1 AA3 3 TYR A 101 PHE A 103 0 SHEET 2 AA3 3 VAL A 157 GLU A 166 1 O PHE A 159 N LYS A 102 SHEET 3 AA3 3 HIS A 172 THR A 175 -1 O ALA A 173 N MET A 165 SHEET 1 AA4 7 VAL B 73 LEU B 75 0 SHEET 2 AA4 7 PHE B 66 ALA B 70 -1 N ALA B 70 O VAL B 73 SHEET 3 AA4 7 MET B 17 CYS B 22 -1 N 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 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 GLN B 83 O VAL B 86 SHEET 1 AA5 5 TYR B 101 PHE B 103 0 SHEET 2 AA5 5 CYS B 156 GLU B 166 1 O PHE B 159 N LYS B 102 SHEET 3 AA5 5 VAL B 148 ASP B 153 -1 N ASP B 153 O CYS B 156 SHEET 4 AA5 5 THR B 111 TYR B 118 -1 N SER B 113 O PHE B 150 SHEET 5 AA5 5 SER B 121 ALA B 129 -1 O SER B 123 N ALA B 116 SHEET 1 AA6 3 TYR B 101 PHE B 103 0 SHEET 2 AA6 3 CYS B 156 GLU B 166 1 O PHE B 159 N LYS B 102 SHEET 3 AA6 3 HIS B 172 THR B 175 -1 O ALA B 173 N MET B 165 LINK SG CYS A 145 C12 83N A 401 1555 1555 1.78 LINK SG CYS B 145 C12 83N B 401 1555 1555 1.76 LINK OE1 GLU A 178 NA NA A 405 1555 1555 2.20 LINK NA NA A 405 O HOH A 515 1555 1555 2.36 LINK NA NA A 405 O HOH A 760 1555 1555 2.56 LINK NA NA A 405 O HOH A 795 1555 1555 2.58 LINK NA NA A 405 O HOH A 810 1555 1555 2.88 LINK O ASN B 221 NA NA B 403 1555 1555 2.72 LINK OD1 ASN B 221 NA NA B 403 1555 1555 2.19 LINK O PHE B 223 NA NA B 403 1555 1555 2.28 LINK O ASP B 263 NA NA B 403 1555 1555 2.83 LINK OD1 ASP B 263 NA NA B 403 1555 1555 2.10 LINK NA NA B 403 O HOH B 532 1555 1555 2.36 CRYST1 67.976 99.433 104.002 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 0.010057 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009615 0.00000