HEADER ANTIVIRAL PROTEIN 18-JUN-23 8PH4 TITLE CO-CRYSTAL STRUCTURE OF THE SARS-COV2 MAIN PROTEASE NSP5 WITH AN TITLE 2 URACIL-CARRYING X77-LIKE INHIBITOR 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MPRO, INHIBITOR, COMPLEX, PROTEASE, ANTIVIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.BARTHEL,N.ALTINCEKIC,N.JORES,J.WOLLENHAUPT,M.S.WEISS,H.SCHWALBE REVDAT 2 28-FEB-24 8PH4 1 JRNL REVDAT 1 31-JAN-24 8PH4 0 JRNL AUTH N.ALTINCEKIC,N.JORES,F.LOHR,C.RICHTER,C.EHRHARDT, JRNL AUTH 2 M.J.J.BLOMMERS,H.BERG,S.OZTURK,S.L.GANDE,V.LINHARD,J.ORTS, JRNL AUTH 3 M.J.ABI SAAD,M.BUTIKOFER,J.KADERLI,B.G.KARLSSON,U.BRATH, JRNL AUTH 4 M.HEDENSTROM,G.GROBNER,U.H.SAUER,A.PERRAKIS,J.LANGER, JRNL AUTH 5 L.BANCI,F.CANTINI,M.FRAGAI,D.GRIFAGNI,T.BARTHEL, JRNL AUTH 6 J.WOLLENHAUPT,M.S.WEISS,A.ROBERTSON,A.BAX,S.SREERAMULU, JRNL AUTH 7 H.SCHWALBE JRNL TITL TARGETING THE MAIN PROTEASE (M PRO , NSP5) BY GROWTH OF JRNL TITL 2 FRAGMENT SCAFFOLDS EXPLOITING STRUCTURE-BASED METHODOLOGIES. JRNL REF ACS CHEM.BIOL. V. 19 563 2024 JRNL REFN ESSN 1554-8937 JRNL PMID 38232960 JRNL DOI 10.1021/ACSCHEMBIO.3C00720 REMARK 2 REMARK 2 RESOLUTION. 1.69 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.69 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.28 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 30.410 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 78838 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.224 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.740 REMARK 3 FREE R VALUE TEST SET COUNT : 2158 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 49.2800 - 4.1700 0.97 5401 148 0.1676 0.2089 REMARK 3 2 4.1700 - 3.3100 0.96 5198 143 0.1849 0.2228 REMARK 3 3 3.3100 - 2.8900 0.97 5156 141 0.2278 0.2608 REMARK 3 4 2.8900 - 2.6200 0.97 5154 141 0.2375 0.2745 REMARK 3 5 2.6200 - 2.4400 0.97 5094 139 0.2450 0.2601 REMARK 3 6 2.4400 - 2.2900 0.97 5130 141 0.2426 0.2506 REMARK 3 7 2.2900 - 2.1800 0.97 5064 138 0.2452 0.2521 REMARK 3 8 2.1800 - 2.0800 0.97 5117 140 0.2467 0.2724 REMARK 3 9 2.0800 - 2.0000 0.97 5066 139 0.2524 0.3121 REMARK 3 10 2.0000 - 1.9300 0.97 5053 138 0.2609 0.2788 REMARK 3 11 1.9300 - 1.8700 0.97 5081 139 0.2757 0.2717 REMARK 3 12 1.8700 - 1.8200 0.97 5087 139 0.2966 0.2666 REMARK 3 13 1.8200 - 1.7700 0.97 5058 139 0.3158 0.3131 REMARK 3 14 1.7700 - 1.7300 0.97 5064 138 0.3283 0.3231 REMARK 3 15 1.7300 - 1.6900 0.96 5014 138 0.3461 0.3421 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) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.177 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.68 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 5010 REMARK 3 ANGLE : 0.870 6828 REMARK 3 CHIRALITY : 0.049 747 REMARK 3 PLANARITY : 0.008 885 REMARK 3 DIHEDRAL : 8.038 702 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.0938 -7.1986 -17.8407 REMARK 3 T TENSOR REMARK 3 T11: 0.1683 T22: 0.2442 REMARK 3 T33: 0.1590 T12: 0.0327 REMARK 3 T13: -0.0031 T23: 0.0345 REMARK 3 L TENSOR REMARK 3 L11: 2.3162 L22: 1.3220 REMARK 3 L33: 2.4348 L12: -0.0796 REMARK 3 L13: -1.4458 L23: -0.1398 REMARK 3 S TENSOR REMARK 3 S11: -0.1240 S12: -0.2467 S13: -0.1336 REMARK 3 S21: 0.0173 S22: -0.0122 S23: -0.1377 REMARK 3 S31: 0.0470 S32: 0.3599 S33: 0.1287 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 70 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.4197 -2.0252 -27.1778 REMARK 3 T TENSOR REMARK 3 T11: 0.2835 T22: 0.5302 REMARK 3 T33: 0.3596 T12: -0.0270 REMARK 3 T13: 0.0079 T23: 0.0340 REMARK 3 L TENSOR REMARK 3 L11: 1.2508 L22: 0.6637 REMARK 3 L33: 5.1846 L12: -0.4083 REMARK 3 L13: -0.2122 L23: -1.3675 REMARK 3 S TENSOR REMARK 3 S11: -0.0078 S12: -0.2679 S13: 0.2627 REMARK 3 S21: 0.1648 S22: -0.0467 S23: -0.0247 REMARK 3 S31: -0.6300 S32: 0.3605 S33: 0.1431 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 71 THROUGH 180 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.1936 -7.9930 -22.5710 REMARK 3 T TENSOR REMARK 3 T11: 0.1233 T22: 0.2093 REMARK 3 T33: 0.1521 T12: 0.0180 REMARK 3 T13: 0.0212 T23: 0.0239 REMARK 3 L TENSOR REMARK 3 L11: 2.6753 L22: 1.6846 REMARK 3 L33: 2.1417 L12: -0.6179 REMARK 3 L13: -0.3809 L23: 0.0259 REMARK 3 S TENSOR REMARK 3 S11: -0.0373 S12: -0.1847 S13: -0.1726 REMARK 3 S21: 0.0334 S22: -0.0499 S23: -0.0661 REMARK 3 S31: 0.1697 S32: 0.2751 S33: 0.0628 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 181 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.9598 -3.4681 -33.6560 REMARK 3 T TENSOR REMARK 3 T11: 0.1849 T22: 0.2872 REMARK 3 T33: 0.1717 T12: 0.0266 REMARK 3 T13: -0.0057 T23: -0.0178 REMARK 3 L TENSOR REMARK 3 L11: 7.1096 L22: 0.7683 REMARK 3 L33: 0.5875 L12: 0.9969 REMARK 3 L13: -0.2070 L23: -0.3313 REMARK 3 S TENSOR REMARK 3 S11: -0.0498 S12: 0.2929 S13: 0.4599 REMARK 3 S21: -0.0785 S22: 0.0800 S23: 0.0751 REMARK 3 S31: -0.0706 S32: -0.0749 S33: -0.0300 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 237 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.2826 -5.7352 -38.3265 REMARK 3 T TENSOR REMARK 3 T11: 0.1602 T22: 0.3298 REMARK 3 T33: 0.2329 T12: 0.0294 REMARK 3 T13: -0.0212 T23: -0.0163 REMARK 3 L TENSOR REMARK 3 L11: 1.4228 L22: 1.3094 REMARK 3 L33: 2.6151 L12: -0.0356 REMARK 3 L13: -0.2016 L23: 0.2702 REMARK 3 S TENSOR REMARK 3 S11: -0.0482 S12: -0.0466 S13: -0.1121 REMARK 3 S21: -0.0183 S22: -0.0315 S23: 0.2133 REMARK 3 S31: 0.0205 S32: -0.2667 S33: 0.0558 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 238 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.2787 -7.6686 -31.0323 REMARK 3 T TENSOR REMARK 3 T11: 0.1535 T22: 0.3540 REMARK 3 T33: 0.1926 T12: -0.0067 REMARK 3 T13: 0.0034 T23: -0.0047 REMARK 3 L TENSOR REMARK 3 L11: 1.8483 L22: 2.2871 REMARK 3 L33: 1.7402 L12: -0.7330 REMARK 3 L13: 0.6915 L23: 0.1458 REMARK 3 S TENSOR REMARK 3 S11: -0.0643 S12: -0.3163 S13: -0.0928 REMARK 3 S21: 0.1813 S22: 0.0951 S23: 0.0683 REMARK 3 S31: -0.0114 S32: -0.2007 S33: -0.0231 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 59 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.5352 -11.6588 1.7662 REMARK 3 T TENSOR REMARK 3 T11: 0.1667 T22: 0.1643 REMARK 3 T33: 0.1681 T12: -0.0088 REMARK 3 T13: -0.0115 T23: 0.0104 REMARK 3 L TENSOR REMARK 3 L11: 2.6867 L22: 1.2129 REMARK 3 L33: 2.8896 L12: -0.3050 REMARK 3 L13: -0.6477 L23: -0.1258 REMARK 3 S TENSOR REMARK 3 S11: -0.0291 S12: -0.1514 S13: -0.2763 REMARK 3 S21: 0.0565 S22: -0.0068 S23: 0.1705 REMARK 3 S31: 0.2920 S32: -0.2154 S33: 0.0482 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 60 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.3141 -13.0200 8.3758 REMARK 3 T TENSOR REMARK 3 T11: 0.2666 T22: 0.3329 REMARK 3 T33: 0.2538 T12: -0.0043 REMARK 3 T13: -0.0121 T23: 0.0542 REMARK 3 L TENSOR REMARK 3 L11: 2.7478 L22: 1.6696 REMARK 3 L33: 2.6450 L12: -0.9116 REMARK 3 L13: 0.0092 L23: 0.0362 REMARK 3 S TENSOR REMARK 3 S11: -0.0330 S12: -0.3535 S13: -0.4861 REMARK 3 S21: 0.1563 S22: 0.0437 S23: 0.0706 REMARK 3 S31: 0.4842 S32: 0.0153 S33: 0.0072 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 111 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.8340 -3.9619 -6.4246 REMARK 3 T TENSOR REMARK 3 T11: 0.1516 T22: 0.2200 REMARK 3 T33: 0.1531 T12: -0.0016 REMARK 3 T13: 0.0118 T23: 0.0175 REMARK 3 L TENSOR REMARK 3 L11: 1.3921 L22: 3.6028 REMARK 3 L33: 3.2354 L12: -0.8348 REMARK 3 L13: -0.5048 L23: -0.0034 REMARK 3 S TENSOR REMARK 3 S11: 0.0775 S12: -0.0460 S13: -0.0005 REMARK 3 S21: 0.0035 S22: -0.0748 S23: -0.1839 REMARK 3 S31: 0.0132 S32: 0.0490 S33: -0.0014 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 156 THROUGH 237 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.0425 8.9138 -8.8101 REMARK 3 T TENSOR REMARK 3 T11: 0.1983 T22: 0.2410 REMARK 3 T33: 0.1880 T12: 0.0461 REMARK 3 T13: 0.0475 T23: 0.0099 REMARK 3 L TENSOR REMARK 3 L11: 1.3700 L22: 2.2943 REMARK 3 L33: 2.1870 L12: -0.0256 REMARK 3 L13: -0.7783 L23: -0.5722 REMARK 3 S TENSOR REMARK 3 S11: 0.1584 S12: 0.1475 S13: 0.2408 REMARK 3 S21: -0.2137 S22: 0.0661 S23: 0.0777 REMARK 3 S31: -0.2668 S32: -0.3456 S33: -0.1727 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 238 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.8090 17.5027 -16.3241 REMARK 3 T TENSOR REMARK 3 T11: 0.3723 T22: 0.2927 REMARK 3 T33: 0.3461 T12: 0.0467 REMARK 3 T13: 0.1298 T23: 0.0146 REMARK 3 L TENSOR REMARK 3 L11: 1.8473 L22: 4.1600 REMARK 3 L33: 4.8473 L12: 0.2635 REMARK 3 L13: -1.3013 L23: 1.7276 REMARK 3 S TENSOR REMARK 3 S11: 0.3281 S12: 0.1867 S13: 0.2724 REMARK 3 S21: -0.3825 S22: 0.0447 S23: -0.3556 REMARK 3 S31: -0.6288 S32: -0.0120 S33: -0.3240 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 8PH4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-JUN-23. REMARK 100 THE DEPOSITION ID IS D_1292130990. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-APR-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 78838 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.690 REMARK 200 RESOLUTION RANGE LOW (A) : 49.280 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 7.210 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.7600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.69 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 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 : 0.930 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23.5 % PEG 1.500, 0.2 M MIB PH 7.4, 5 REMARK 280 % DMSO, 0.025 MM EDTA PH 7.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 295.15K 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 33.84500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 51.68500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.02000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.68500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.84500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.02000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 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 GLY B 302 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: 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 -135.67 63.02 REMARK 500 ASN A 51 57.55 -140.29 REMARK 500 ASN A 84 -120.76 54.18 REMARK 500 ASP A 155 -14.62 72.67 REMARK 500 ASP B 33 -123.48 52.95 REMARK 500 HIS B 41 0.12 -69.10 REMARK 500 ASN B 51 71.88 -162.96 REMARK 500 ASN B 84 -125.95 54.98 REMARK 500 ASN B 142 119.66 -32.99 REMARK 500 TYR B 154 71.57 55.83 REMARK 500 ASP B 155 -10.66 59.72 REMARK 500 ARG B 298 -8.87 -56.93 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 655 DISTANCE = 5.93 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 404 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 17 O REMARK 620 2 GLY A 120 O 87.7 REMARK 620 3 HOH A 570 O 85.3 93.3 REMARK 620 4 HOH A 579 O 94.5 96.0 170.7 REMARK 620 5 HOH A 637 O 167.0 105.2 91.7 86.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 404 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET B 17 O REMARK 620 2 GLY B 120 O 97.3 REMARK 620 3 HOH B 520 O 86.6 98.0 REMARK 620 4 HOH B 569 O 100.4 98.6 161.0 REMARK 620 5 HOH B 586 O 150.4 111.8 84.1 81.2 REMARK 620 N 1 2 3 4 DBREF 8PH4 A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 8PH4 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 MLI A 401 7 HET YQN A 402 37 HET YQN A 403 37 HET NA A 404 1 HET YQN B 401 37 HET YQN B 402 37 HET DMS B 403 10 HET NA B 404 1 HETNAM MLI MALONATE ION HETNAM YQN ~{N}-(4-~{TERT}-BUTYLPHENYL)-~{N}-[(1~{S})-2- HETNAM 2 YQN (CYCLOHEXYLAMINO)-2-OXIDANYLIDENE-1-PYRIDIN-3-YL- HETNAM 3 YQN ETHYL]-2,6-BIS(OXIDANYLIDENE)-5~{H}-PYRIMIDINE-5- HETNAM 4 YQN CARBOXAMIDE HETNAM NA SODIUM ION HETNAM DMS DIMETHYL SULFOXIDE FORMUL 3 MLI C3 H2 O4 2- FORMUL 4 YQN 4(C28 H33 N5 O4) FORMUL 6 NA 2(NA 1+) FORMUL 9 DMS C2 H6 O S FORMUL 11 HOH *249(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 ASN A 53 ARG A 60 1 8 HELIX 4 AA4 SER A 62 HIS A 64 5 3 HELIX 5 AA5 ILE A 200 ASN A 214 1 15 HELIX 6 AA6 THR A 226 MET A 235 1 10 HELIX 7 AA7 LYS A 236 ASN A 238 5 3 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 GLU B 47 ASN B 51 5 5 HELIX 15 AB6 ASN B 53 ARG B 60 1 8 HELIX 16 AB7 SER B 62 HIS B 64 5 3 HELIX 17 AB8 ILE B 200 ASN B 214 1 15 HELIX 18 AB9 THR B 226 TYR B 237 1 12 HELIX 19 AC1 THR B 243 LEU B 250 1 8 HELIX 20 AC2 LEU B 250 GLY B 258 1 9 HELIX 21 AC3 ALA B 260 GLY B 275 1 16 HELIX 22 AC4 THR B 292 ARG B 298 1 7 SHEET 1 AA1 7 VAL A 73 LEU A 75 0 SHEET 2 AA1 7 PHE A 66 ALA A 70 -1 N VAL A 68 O LEU A 75 SHEET 3 AA1 7 MET A 17 CYS A 22 -1 N GLN A 19 O GLN A 69 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 CYS A 156 GLU A 166 1 O PHE A 159 N LYS A 102 SHEET 3 AA2 5 VAL A 148 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 3 TYR A 101 PHE A 103 0 SHEET 2 AA3 3 CYS A 156 GLU A 166 1 O PHE A 159 N LYS A 102 SHEET 3 AA3 3 HIS A 172 THR A 175 -1 O ALA A 173 N MET A 165 SHEET 1 AA4 7 VAL B 73 LEU B 75 0 SHEET 2 AA4 7 PHE B 66 ALA B 70 -1 N ALA B 70 O VAL B 73 SHEET 3 AA4 7 MET B 17 CYS B 22 -1 N THR B 21 O LEU B 67 SHEET 4 AA4 7 THR B 25 LEU B 32 -1 O LEU B 27 N VAL B 20 SHEET 5 AA4 7 VAL B 35 PRO B 39 -1 O 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 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 O MET A 17 NA NA A 404 1555 1555 2.52 LINK O GLY A 120 NA NA A 404 1555 1555 2.42 LINK NA NA A 404 O HOH A 570 1555 1555 2.49 LINK NA NA A 404 O HOH A 579 1555 1555 2.43 LINK NA NA A 404 O HOH A 637 1555 1555 2.25 LINK O MET B 17 NA NA B 404 1555 1555 2.31 LINK O GLY B 120 NA NA B 404 1555 1555 2.28 LINK NA NA B 404 O HOH B 520 1555 1555 2.67 LINK NA NA B 404 O HOH B 569 1555 1555 2.38 LINK NA NA B 404 O HOH B 586 1555 1555 2.47 CRYST1 67.690 100.040 103.370 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 0.014773 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009996 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009674 0.00000