HEADER VIRAL PROTEIN 03-SEP-25 9WM7 TITLE CRYSTAL STRUCTURE OF HKU5-COV-1 MAIN PROTEASE(MPRO) IN COMPLEX WITH TITLE 2 NIRMATRELVIR COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3C-LIKE PROTEINASE NSP5; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 3CL-PRO,3CLP,NSP5; COMPND 5 EC: 3.4.22.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PIPISTRELLUS BAT CORONAVIRUS HKU5; SOURCE 3 ORGANISM_TAXID: 694008; SOURCE 4 GENE: REP, 1A-1B; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MAIN PROTEASE, 3C-LIKE PROTEASE, CORONAVIRUS, HKU5-COV-1, BAT KEYWDS 2 CORONAVIRUS, VIRAL PROTEASE, NIRMATELVIR, DRUG TARGET, ACTIVE SITE, KEYWDS 3 VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR H.KIM,J.LEE,S.JUNG,J.KIM,I.JO REVDAT 1 09-SEP-26 9WM7 0 JRNL AUTH H.KIM,J.LEE,S.JUNG,J.KIM,I.JO JRNL TITL CRYSTAL STRUCTURE OF HKU5-COV-1 MAIN PROTEASE(MPRO) IN JRNL TITL 2 COMPLEX WITH NIRMATRELVIR JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.91 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) : 1.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 84.2 REMARK 3 NUMBER OF REFLECTIONS : 17889 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.170 REMARK 3 FREE R VALUE TEST SET COUNT : 924 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 49.5100 - 3.6500 0.96 2842 144 0.1601 0.1920 REMARK 3 2 3.6500 - 2.8900 0.97 2791 149 0.1879 0.2590 REMARK 3 3 2.8900 - 2.5300 0.98 2807 161 0.2133 0.2504 REMARK 3 4 2.5300 - 2.3000 0.94 2700 147 0.2141 0.2622 REMARK 3 5 2.3000 - 2.1300 0.89 2529 147 0.2107 0.2407 REMARK 3 6 2.1300 - 2.0100 0.70 2021 107 0.2203 0.2984 REMARK 3 7 2.0100 - 1.9100 0.45 1275 69 0.2199 0.2743 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.010 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 : 0.004 2401 REMARK 3 ANGLE : 0.739 3276 REMARK 3 CHIRALITY : 0.050 372 REMARK 3 PLANARITY : 0.004 418 REMARK 3 DIHEDRAL : 6.751 326 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): -13.2227 -13.3319 9.7647 REMARK 3 T TENSOR REMARK 3 T11: 0.1385 T22: 0.0986 REMARK 3 T33: 0.2402 T12: 0.0327 REMARK 3 T13: -0.0225 T23: 0.0591 REMARK 3 L TENSOR REMARK 3 L11: 0.3180 L22: 0.9735 REMARK 3 L33: 1.8590 L12: -0.3639 REMARK 3 L13: 0.5677 L23: -0.5338 REMARK 3 S TENSOR REMARK 3 S11: -0.0501 S12: 0.1206 S13: 0.2960 REMARK 3 S21: -0.0109 S22: -0.1605 S23: 0.0196 REMARK 3 S31: -0.1814 S32: 0.0802 S33: 0.1204 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 66 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.0542 -13.7289 -7.7680 REMARK 3 T TENSOR REMARK 3 T11: 0.2529 T22: 0.2953 REMARK 3 T33: 0.3430 T12: 0.0725 REMARK 3 T13: -0.1279 T23: 0.1048 REMARK 3 L TENSOR REMARK 3 L11: 1.1304 L22: 5.6455 REMARK 3 L33: 3.1245 L12: -2.0269 REMARK 3 L13: 0.2350 L23: -0.7686 REMARK 3 S TENSOR REMARK 3 S11: 0.0897 S12: 0.1125 S13: 0.0014 REMARK 3 S21: -0.3269 S22: -0.0025 S23: 0.4736 REMARK 3 S31: 0.0972 S32: -0.2860 S33: -0.1937 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 67 THROUGH 86 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.5959 -3.7033 5.4235 REMARK 3 T TENSOR REMARK 3 T11: 0.3380 T22: 0.2413 REMARK 3 T33: 0.4292 T12: 0.0684 REMARK 3 T13: -0.1043 T23: 0.1223 REMARK 3 L TENSOR REMARK 3 L11: 1.3545 L22: 3.6416 REMARK 3 L33: 1.1476 L12: -1.2020 REMARK 3 L13: 0.0363 L23: -1.6122 REMARK 3 S TENSOR REMARK 3 S11: -0.0755 S12: -0.0025 S13: 0.2929 REMARK 3 S21: 0.2990 S22: 0.0866 S23: 0.0762 REMARK 3 S31: -0.7926 S32: -0.2571 S33: -0.1213 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 87 THROUGH 123 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.2635 -13.4095 7.9773 REMARK 3 T TENSOR REMARK 3 T11: 0.1271 T22: 0.1608 REMARK 3 T33: 0.2525 T12: 0.0156 REMARK 3 T13: -0.0242 T23: 0.1135 REMARK 3 L TENSOR REMARK 3 L11: 0.7473 L22: 0.6761 REMARK 3 L33: 0.6563 L12: -0.4360 REMARK 3 L13: 0.2314 L23: -0.3283 REMARK 3 S TENSOR REMARK 3 S11: -0.0574 S12: 0.1961 S13: 0.4705 REMARK 3 S21: -0.0110 S22: -0.1229 S23: -0.2615 REMARK 3 S31: -0.1543 S32: 0.1657 S33: 0.1110 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 124 THROUGH 142 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.7450 -27.2507 12.3833 REMARK 3 T TENSOR REMARK 3 T11: 0.1036 T22: 0.0941 REMARK 3 T33: 0.0412 T12: 0.0337 REMARK 3 T13: -0.0208 T23: 0.0415 REMARK 3 L TENSOR REMARK 3 L11: 3.1182 L22: 3.6269 REMARK 3 L33: 5.1018 L12: -1.2940 REMARK 3 L13: -1.7565 L23: 2.7186 REMARK 3 S TENSOR REMARK 3 S11: 0.0321 S12: 0.0830 S13: 0.1503 REMARK 3 S21: -0.0176 S22: -0.0615 S23: -0.2210 REMARK 3 S31: 0.2305 S32: 0.0750 S33: 0.0323 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 143 THROUGH 192 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.5928 -22.3916 6.0882 REMARK 3 T TENSOR REMARK 3 T11: 0.0451 T22: 0.1144 REMARK 3 T33: 0.0980 T12: 0.0358 REMARK 3 T13: -0.0081 T23: 0.0682 REMARK 3 L TENSOR REMARK 3 L11: 1.4222 L22: 2.3863 REMARK 3 L33: 2.4086 L12: -0.3004 REMARK 3 L13: -0.2912 L23: -0.4656 REMARK 3 S TENSOR REMARK 3 S11: 0.0480 S12: 0.2225 S13: 0.1415 REMARK 3 S21: -0.0761 S22: -0.0823 S23: -0.1050 REMARK 3 S31: 0.1202 S32: 0.0478 S33: -0.0246 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 193 THROUGH 217 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.2102 -38.0134 12.7469 REMARK 3 T TENSOR REMARK 3 T11: 0.2380 T22: 0.1883 REMARK 3 T33: 0.0879 T12: 0.1459 REMARK 3 T13: 0.0312 T23: 0.0452 REMARK 3 L TENSOR REMARK 3 L11: 0.9258 L22: 0.8426 REMARK 3 L33: 0.7879 L12: -0.7212 REMARK 3 L13: 0.5170 L23: -0.7772 REMARK 3 S TENSOR REMARK 3 S11: 0.1215 S12: 0.0947 S13: -0.0957 REMARK 3 S21: -0.1334 S22: -0.0415 S23: 0.0776 REMARK 3 S31: 0.2125 S32: 0.0645 S33: -0.3057 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 218 THROUGH 284 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.7189 -44.8678 17.4194 REMARK 3 T TENSOR REMARK 3 T11: 0.5190 T22: 0.3578 REMARK 3 T33: 0.2021 T12: 0.2616 REMARK 3 T13: 0.0026 T23: 0.0288 REMARK 3 L TENSOR REMARK 3 L11: 0.9168 L22: 0.1222 REMARK 3 L33: 1.0917 L12: -0.3141 REMARK 3 L13: -0.1142 L23: -0.0841 REMARK 3 S TENSOR REMARK 3 S11: 0.1236 S12: 0.2448 S13: -0.2376 REMARK 3 S21: -0.2631 S22: -0.2008 S23: -0.0866 REMARK 3 S31: 0.6438 S32: 0.3844 S33: -0.0667 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 285 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.2760 -32.7932 20.5308 REMARK 3 T TENSOR REMARK 3 T11: 0.1435 T22: 0.2331 REMARK 3 T33: 0.1087 T12: 0.1225 REMARK 3 T13: 0.0412 T23: 0.0511 REMARK 3 L TENSOR REMARK 3 L11: 3.4551 L22: 5.3036 REMARK 3 L33: 3.7210 L12: 1.5712 REMARK 3 L13: -0.1177 L23: 0.5611 REMARK 3 S TENSOR REMARK 3 S11: 0.0756 S12: 0.0558 S13: 0.2757 REMARK 3 S21: -0.1314 S22: -0.1227 S23: 0.0849 REMARK 3 S31: 0.1654 S32: 0.2235 S33: 0.0510 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 9WM7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-SEP-25. REMARK 100 THE DEPOSITION ID IS D_1300063254. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-JUN-25 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 : PAL/PLS REMARK 200 BEAMLINE : 11C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97942 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20097 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.10100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.34100 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.16M MGCL2, 0.08M TRIS-HCL(PH 8.5), REMARK 280 24% PEG 4000, 20% GLYCEROL, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 287.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 52.33800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.82900 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 52.33800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 28.82900 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: 2620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 -18.95527 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 45.40304 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 VAL A 304 REMARK 465 MET 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 LYS A 5 99.35 -66.25 REMARK 500 ASP A 33 -129.61 53.65 REMARK 500 ASP A 51 82.86 -155.31 REMARK 500 ASN A 220 12.73 -140.69 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 623 DISTANCE = 7.95 ANGSTROMS DBREF 9WM7 A 1 306 UNP P0C6W4 R1AB_BCHK5 3339 3644 SEQRES 1 A 306 SER GLY LEU VAL LYS MET ALA ALA PRO SER GLY VAL VAL SEQRES 2 A 306 GLU ASN CYS MET VAL GLN VAL THR CYS GLY SER MET THR SEQRES 3 A 306 LEU ASN GLY LEU TRP LEU ASP ASN TYR VAL TRP CYS PRO SEQRES 4 A 306 ARG HIS VAL MET CYS PRO ALA ASP GLN LEU SER ASP PRO SEQRES 5 A 306 ASN TYR ASP ALA LEU LEU VAL SER LYS THR ASN LEU SER SEQRES 6 A 306 PHE ILE VAL GLN LYS ASN VAL GLY ALA PRO ALA ASN LEU SEQRES 7 A 306 ARG VAL VAL GLY HIS THR MET VAL GLY THR LEU LEU LYS SEQRES 8 A 306 LEU THR VAL GLU SER ALA ASN PRO GLN THR PRO ALA TYR SEQRES 9 A 306 THR PHE THR THR VAL LYS PRO GLY ALA SER PHE SER VAL SEQRES 10 A 306 LEU ALA CYS TYR ASN GLY ARG PRO THR GLY VAL PHE MET SEQRES 11 A 306 VAL ASN MET ARG GLN ASN SER THR ILE LYS GLY SER PHE SEQRES 12 A 306 LEU CYS GLY SER CYS GLY SER VAL GLY TYR THR GLN GLU SEQRES 13 A 306 GLY ASN VAL ILE ASN PHE CYS TYR MET HIS GLN MET GLU SEQRES 14 A 306 LEU SER ASN GLY THR HIS THR GLY CYS ALA PHE ASP GLY SEQRES 15 A 306 VAL MET TYR GLY ALA PHE GLU ASP ARG GLN VAL HIS GLN SEQRES 16 A 306 VAL GLN LEU SER ASP LYS TYR CYS THR ILE ASN ILE VAL SEQRES 17 A 306 ALA TRP LEU TYR ALA ALA ILE LEU ASN GLY CYS ASN TRP SEQRES 18 A 306 PHE VAL LYS PRO ASN LYS THR GLY ILE ALA THR PHE ASN SEQRES 19 A 306 GLU TRP ALA MET SER ASN GLN PHE THR GLU PHE ILE GLY SEQRES 20 A 306 THR GLN SER VAL ASP MET LEU ALA HIS LYS THR GLY VAL SEQRES 21 A 306 SER VAL GLU GLN LEU LEU TYR ALA ILE GLN THR LEU HIS SEQRES 22 A 306 LYS GLY PHE GLN GLY LYS THR ILE LEU GLY ASN SER MET SEQRES 23 A 306 LEU GLU ASP GLU PHE THR PRO ASP ASP VAL ASN MET GLN SEQRES 24 A 306 VAL MET GLY VAL VAL MET GLN HET 4WI A 401 35 HETNAM 4WI (1R,2S,5S)-N-{(1E,2S)-1-IMINO-3-[(3S)-2-OXOPYRROLIDIN- HETNAM 2 4WI 3-YL]PROPAN-2-YL}-6,6-DIMETHYL-3-[3-METHYL-N- HETNAM 3 4WI (TRIFLUOROACETYL)-L-VALYL]-3-AZABICYCLO[3.1.0]HEXANE- HETNAM 4 4WI 2-CARBOXAMIDE HETSYN 4WI PF-07321332, BOUND FORM; NIRMATRELVIR, BOUND FORM; HETSYN 2 4WI PAXLOVID, BOUND FORM FORMUL 2 4WI C23 H34 F3 N5 O4 FORMUL 3 HOH *123(H2 O) HELIX 1 AA1 SER A 10 ASN A 15 1 6 HELIX 2 AA2 HIS A 41 CYS A 44 5 4 HELIX 3 AA3 ASN A 53 SER A 60 1 8 HELIX 4 AA4 LYS A 61 PHE A 66 5 6 HELIX 5 AA5 MET A 184 PHE A 188 5 5 HELIX 6 AA6 CYS A 203 ASN A 217 1 15 HELIX 7 AA7 GLY A 229 ALA A 237 1 9 HELIX 8 AA8 THR A 248 GLY A 259 1 12 HELIX 9 AA9 SER A 261 GLY A 275 1 15 HELIX 10 AB1 THR A 292 MET A 301 1 10 SHEET 1 AA1 7 ALA A 76 LEU A 78 0 SHEET 2 AA1 7 ILE A 67 LYS A 70 -1 N LYS A 70 O ALA A 76 SHEET 3 AA1 7 MET A 17 CYS A 22 -1 N GLN A 19 O GLN A 69 SHEET 4 AA1 7 MET A 25 LEU A 32 -1 O LEU A 27 N VAL A 20 SHEET 5 AA1 7 TYR A 35 PRO A 39 -1 O TRP A 37 N LEU A 30 SHEET 6 AA1 7 LEU A 89 VAL A 94 -1 O LEU A 92 N VAL A 36 SHEET 7 AA1 7 VAL A 80 VAL A 86 -1 N THR A 84 O LYS A 91 SHEET 1 AA2 5 TYR A 104 PHE A 106 0 SHEET 2 AA2 5 VAL A 159 SER A 171 1 O PHE A 162 N THR A 105 SHEET 3 AA2 5 VAL A 151 GLU A 156 -1 N THR A 154 O ASN A 161 SHEET 4 AA2 5 SER A 114 TYR A 121 -1 N SER A 116 O TYR A 153 SHEET 5 AA2 5 ARG A 124 ASN A 132 -1 O THR A 126 N ALA A 119 SHEET 1 AA3 3 TYR A 104 PHE A 106 0 SHEET 2 AA3 3 VAL A 159 SER A 171 1 O PHE A 162 N THR A 105 SHEET 3 AA3 3 THR A 174 CYS A 178 -1 O THR A 174 N LEU A 170 LINK SG CYS A 148 C3 4WI A 401 1555 1555 1.77 CRYST1 104.676 57.658 49.201 90.00 112.66 90.00 C 1 2 1 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 0.009553 0.000000 0.003988 0.00000 SCALE2 0.000000 0.017344 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022025 0.00000 CONECT 1104 2314 CONECT 2313 2321 2337 2341 CONECT 2314 1104 2332 2336 CONECT 2315 2322 2339 2342 CONECT 2316 2333 2338 2343 CONECT 2317 2334 2340 2344 CONECT 2318 2319 2321 CONECT 2319 2318 2337 CONECT 2320 2323 2338 CONECT 2321 2313 2318 2331 CONECT 2322 2315 2324 2338 CONECT 2323 2320 2324 2325 CONECT 2324 2322 2323 2325 CONECT 2325 2323 2324 2326 2327 CONECT 2326 2325 CONECT 2327 2325 CONECT 2328 2335 CONECT 2329 2335 CONECT 2330 2335 CONECT 2331 2321 2332 CONECT 2332 2314 2331 2339 CONECT 2333 2316 2335 2340 CONECT 2334 2317 2345 2346 2347 CONECT 2335 2328 2329 2330 2333 CONECT 2336 2314 CONECT 2337 2313 2319 CONECT 2338 2316 2320 2322 CONECT 2339 2315 2332 CONECT 2340 2317 2333 CONECT 2341 2313 CONECT 2342 2315 CONECT 2343 2316 CONECT 2344 2317 CONECT 2345 2334 CONECT 2346 2334 CONECT 2347 2334 MASTER 383 0 1 10 15 0 0 6 2459 1 36 24 END