HEADER VIRAL PROTEIN 15-AUG-23 8Q71 TITLE CRYSTAL STRUCTURE OF SARS-COV-2 MAIN PROTEASE (MPRO) IN COMPLEX WITH TITLE 2 THE INHIBITOR GC-67 COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3C-LIKE PROTEINASE NSP5; COMPND 3 CHAIN: A, B, C, D; 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 ORGANISM_TAXID: 2901879; SOURCE 4 GENE: REP, 1A-1B; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS INHIBITOR, COMPLEX, NON-COVALENT, TWINNING, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR N.STRATER,C.E.MULLER,K.SYLVESTER,R.H.WEISSE,A.USEINI,S.GAO,L.SONG, AUTHOR 2 Z.LIU,P.ZHAN REVDAT 3 31-JAN-24 8Q71 1 AUTHOR REVDAT 2 27-DEC-23 8Q71 1 JRNL REVDAT 1 06-DEC-23 8Q71 0 JRNL AUTH S.GAO,L.SONG,K.SYLVESTER,B.MERCORELLI,A.LOREGIAN,K.TOTH, JRNL AUTH 2 R.H.WEISSE,A.USEINI,N.STRATER,M.YANG,B.YE,A.E.TOLLEFSON, JRNL AUTH 3 C.E.MULLER,X.LIU,P.ZHAN JRNL TITL DESIGN, SYNTHESIS, AND BIOLOGICAL EVALUATION OF JRNL TITL 2 TRISUBSTITUTED PIPERAZINE DERIVATIVES AS NONCOVALENT SEVERE JRNL TITL 3 ACUTE RESPIRATORY SYNDROME CORONAVIRUS 2 MAIN PROTEASE JRNL TITL 4 INHIBITORS WITH IMPROVED ANTIVIRAL ACTIVITY AND FAVORABLE JRNL TITL 5 DRUGGABILITY. JRNL REF J.MED.CHEM. V. 66 16426 2023 JRNL REFN ISSN 0022-2623 JRNL PMID 37992202 JRNL DOI 10.1021/ACS.JMEDCHEM.3C01876 REMARK 2 REMARK 2 RESOLUTION. 2.32 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 : TWIN_LSQ_F REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 105.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 12.240 REMARK 3 COMPLETENESS FOR RANGE (%) : 67.5 REMARK 3 NUMBER OF REFLECTIONS : 31381 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.227 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.380 REMARK 3 FREE R VALUE TEST SET COUNT : 1687 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1105.8000 - 5.1600 0.94 4029 218 0.2214 0.3045 REMARK 3 2 5.1600 - 4.1000 0.96 4037 172 0.1969 0.2540 REMARK 3 3 4.1000 - 3.5800 0.94 3976 255 0.2060 0.2908 REMARK 3 4 3.5800 - 3.2500 0.94 3995 206 0.2338 0.2975 REMARK 3 5 3.2500 - 3.0200 0.94 3959 210 0.2551 0.3089 REMARK 3 6 3.0200 - 2.8400 0.93 3943 249 0.2686 0.3237 REMARK 3 7 2.8400 - 2.7000 0.74 3126 152 0.2714 0.3459 REMARK 3 8 2.7000 - 2.5800 0.40 1668 79 0.2792 0.2767 REMARK 3 9 2.5800 - 2.4800 0.17 697 49 0.3114 0.3089 REMARK 3 10 2.4800 - 2.4000 0.07 282 15 0.2946 0.3761 REMARK 3 11 2.4000 - 2.3220 0.01 60 4 0.3485 0.1956 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) : 29.010 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 : 0.003 9697 REMARK 3 ANGLE : 0.792 13204 REMARK 3 CHIRALITY : 0.046 1465 REMARK 3 PLANARITY : 0.014 1764 REMARK 3 DIHEDRAL : 13.349 3546 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 8Q71 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-AUG-23. REMARK 100 THE DEPOSITION ID IS D_1292132724. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-23 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 : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P13 (MX1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 S 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS, STARANISO REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31387 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.322 REMARK 200 RESOLUTION RANGE LOW (A) : 105.815 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 0.7 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.27500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.1840 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.62 REMARK 200 COMPLETENESS FOR SHELL (%) : 0.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.34700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.195 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 (%): 39.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MES PH6.0, 20% PEG6000, 0.2M REMARK 280 AMMONIUM CHLORIDE, 0.4 M GC67, VAPOR DIFFUSION, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 105.81550 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 2720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 2660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 THR B 45 REMARK 465 SER B 46 REMARK 465 GLU B 47 REMARK 465 ASP B 48 REMARK 465 MET B 49 REMARK 465 LEU B 50 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 465 GLY C 302 REMARK 465 VAL C 303 REMARK 465 THR C 304 REMARK 465 PHE C 305 REMARK 465 GLN C 306 REMARK 465 THR D 45 REMARK 465 SER D 46 REMARK 465 GLU D 47 REMARK 465 ASP D 48 REMARK 465 MET D 49 REMARK 465 LEU D 50 REMARK 465 ASN D 51 REMARK 465 PRO D 52 REMARK 465 GLY D 302 REMARK 465 VAL D 303 REMARK 465 THR D 304 REMARK 465 PHE D 305 REMARK 465 GLN D 306 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HE22 GLN C 189 O HOH C 503 1.51 REMARK 500 HE ARG D 40 OD2 ASP D 187 1.51 REMARK 500 HH22 ARG A 298 O SER B 123 1.51 REMARK 500 O SER C 123 HH22 ARG D 298 1.53 REMARK 500 H SER B 62 OD1 ASN B 65 1.53 REMARK 500 H GLN D 107 OE1 GLN D 110 1.53 REMARK 500 H SER A 62 OD1 ASN A 65 1.53 REMARK 500 HE ARG C 40 OD2 ASP C 187 1.57 REMARK 500 OD1 ASN A 63 HD1 HIS A 80 1.58 REMARK 500 H ARG C 4 OE1 GLN C 299 1.58 REMARK 500 H GLY D 283 O HOH D 503 1.59 REMARK 500 H SER D 62 OD1 ASN D 65 1.59 REMARK 500 O ASN B 95 HG1 THR B 98 1.59 REMARK 500 HD22 ASN A 221 OE1 GLU A 270 1.60 REMARK 500 OE2 GLU A 55 O HOH A 501 1.97 REMARK 500 OD1 ASN A 53 O HOH A 501 1.98 REMARK 500 OE2 GLU C 166 N SER D 1 2.15 REMARK 500 NZ LYS C 269 O HOH C 501 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 HD21 ASN A 65 O GLN B 273 1556 1.48 REMARK 500 ND2 ASN A 65 O GLN B 273 1556 2.00 REMARK 500 OG SER C 1 O ALA D 255 1655 2.04 REMARK 500 ND2 ASN C 65 O GLN D 273 1454 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LYS A 5 96.95 -64.02 REMARK 500 ASP A 33 -140.99 57.57 REMARK 500 ASP A 34 30.91 -91.86 REMARK 500 HIS A 41 3.62 -69.96 REMARK 500 ASN A 51 79.29 -153.97 REMARK 500 ASN A 84 -116.89 52.21 REMARK 500 TYR A 154 -102.66 68.94 REMARK 500 CYS A 300 -159.77 -102.57 REMARK 500 LYS B 5 95.78 -63.24 REMARK 500 ASP B 33 -142.38 56.86 REMARK 500 HIS B 41 3.54 -67.73 REMARK 500 ASN B 84 -118.66 52.58 REMARK 500 TYR B 154 -80.40 64.95 REMARK 500 ASN B 277 17.24 54.96 REMARK 500 LYS C 5 97.52 -61.50 REMARK 500 ASP C 33 -139.70 57.20 REMARK 500 ASP C 34 31.25 -91.77 REMARK 500 HIS C 41 2.88 -68.02 REMARK 500 ASP C 48 -13.81 -142.19 REMARK 500 ASN C 84 -117.51 52.91 REMARK 500 TYR C 154 -89.54 55.55 REMARK 500 TYR C 154 -89.47 55.40 REMARK 500 THR C 196 135.23 -39.16 REMARK 500 ASP C 289 14.81 -142.43 REMARK 500 CYS C 300 31.43 -99.66 REMARK 500 LYS D 5 96.91 -60.46 REMARK 500 ASP D 33 -136.49 51.95 REMARK 500 ASP D 34 30.41 -89.30 REMARK 500 HIS D 41 6.39 -68.91 REMARK 500 ASN D 84 -118.85 52.63 REMARK 500 TYR D 154 -74.14 70.71 REMARK 500 THR D 196 134.93 -39.05 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 B 527 DISTANCE = 7.12 ANGSTROMS DBREF 8Q71 A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 8Q71 B 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 8Q71 C 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 DBREF 8Q71 D 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 SEQRES 1 C 306 SER GLY PHE ARG LYS MET ALA PHE PRO SER GLY LYS VAL SEQRES 2 C 306 GLU GLY CYS MET VAL GLN VAL THR CYS GLY THR THR THR SEQRES 3 C 306 LEU ASN GLY LEU TRP LEU ASP ASP VAL VAL TYR CYS PRO SEQRES 4 C 306 ARG HIS VAL ILE CYS THR SER GLU ASP MET LEU ASN PRO SEQRES 5 C 306 ASN TYR GLU ASP LEU LEU ILE ARG LYS SER ASN HIS ASN SEQRES 6 C 306 PHE LEU VAL GLN ALA GLY ASN VAL GLN LEU ARG VAL ILE SEQRES 7 C 306 GLY HIS SER MET GLN ASN CYS VAL LEU LYS LEU LYS VAL SEQRES 8 C 306 ASP THR ALA ASN PRO LYS THR PRO LYS TYR LYS PHE VAL SEQRES 9 C 306 ARG ILE GLN PRO GLY GLN THR PHE SER VAL LEU ALA CYS SEQRES 10 C 306 TYR ASN GLY SER PRO SER GLY VAL TYR GLN CYS ALA MET SEQRES 11 C 306 ARG PRO ASN PHE THR ILE LYS GLY SER PHE LEU ASN GLY SEQRES 12 C 306 SER CYS GLY SER VAL GLY PHE ASN ILE ASP TYR ASP CYS SEQRES 13 C 306 VAL SER PHE CYS TYR MET HIS HIS MET GLU LEU PRO THR SEQRES 14 C 306 GLY VAL HIS ALA GLY THR ASP LEU GLU GLY ASN PHE TYR SEQRES 15 C 306 GLY PRO PHE VAL ASP ARG GLN THR ALA GLN ALA ALA GLY SEQRES 16 C 306 THR ASP THR THR ILE THR VAL ASN VAL LEU ALA TRP LEU SEQRES 17 C 306 TYR ALA ALA VAL ILE ASN GLY ASP ARG TRP PHE LEU ASN SEQRES 18 C 306 ARG PHE THR THR THR LEU ASN ASP PHE ASN LEU VAL ALA SEQRES 19 C 306 MET LYS TYR ASN TYR GLU PRO LEU THR GLN ASP HIS VAL SEQRES 20 C 306 ASP ILE LEU GLY PRO LEU SER ALA GLN THR GLY ILE ALA SEQRES 21 C 306 VAL LEU ASP MET CYS ALA SER LEU LYS GLU LEU LEU GLN SEQRES 22 C 306 ASN GLY MET ASN GLY ARG THR ILE LEU GLY SER ALA LEU SEQRES 23 C 306 LEU GLU ASP GLU PHE THR PRO PHE ASP VAL VAL ARG GLN SEQRES 24 C 306 CYS SER GLY VAL THR PHE GLN SEQRES 1 D 306 SER GLY PHE ARG LYS MET ALA PHE PRO SER GLY LYS VAL SEQRES 2 D 306 GLU GLY CYS MET VAL GLN VAL THR CYS GLY THR THR THR SEQRES 3 D 306 LEU ASN GLY LEU TRP LEU ASP ASP VAL VAL TYR CYS PRO SEQRES 4 D 306 ARG HIS VAL ILE CYS THR SER GLU ASP MET LEU ASN PRO SEQRES 5 D 306 ASN TYR GLU ASP LEU LEU ILE ARG LYS SER ASN HIS ASN SEQRES 6 D 306 PHE LEU VAL GLN ALA GLY ASN VAL GLN LEU ARG VAL ILE SEQRES 7 D 306 GLY HIS SER MET GLN ASN CYS VAL LEU LYS LEU LYS VAL SEQRES 8 D 306 ASP THR ALA ASN PRO LYS THR PRO LYS TYR LYS PHE VAL SEQRES 9 D 306 ARG ILE GLN PRO GLY GLN THR PHE SER VAL LEU ALA CYS SEQRES 10 D 306 TYR ASN GLY SER PRO SER GLY VAL TYR GLN CYS ALA MET SEQRES 11 D 306 ARG PRO ASN PHE THR ILE LYS GLY SER PHE LEU ASN GLY SEQRES 12 D 306 SER CYS GLY SER VAL GLY PHE ASN ILE ASP TYR ASP CYS SEQRES 13 D 306 VAL SER PHE CYS TYR MET HIS HIS MET GLU LEU PRO THR SEQRES 14 D 306 GLY VAL HIS ALA GLY THR ASP LEU GLU GLY ASN PHE TYR SEQRES 15 D 306 GLY PRO PHE VAL ASP ARG GLN THR ALA GLN ALA ALA GLY SEQRES 16 D 306 THR ASP THR THR ILE THR VAL ASN VAL LEU ALA TRP LEU SEQRES 17 D 306 TYR ALA ALA VAL ILE ASN GLY ASP ARG TRP PHE LEU ASN SEQRES 18 D 306 ARG PHE THR THR THR LEU ASN ASP PHE ASN LEU VAL ALA SEQRES 19 D 306 MET LYS TYR ASN TYR GLU PRO LEU THR GLN ASP HIS VAL SEQRES 20 D 306 ASP ILE LEU GLY PRO LEU SER ALA GLN THR GLY ILE ALA SEQRES 21 D 306 VAL LEU ASP MET CYS ALA SER LEU LYS GLU LEU LEU GLN SEQRES 22 D 306 ASN GLY MET ASN GLY ARG THR ILE LEU GLY SER ALA LEU SEQRES 23 D 306 LEU GLU ASP GLU PHE THR PRO PHE ASP VAL VAL ARG GLN SEQRES 24 D 306 CYS SER GLY VAL THR PHE GLN HET KKO A 401 55 HET KKO B 401 55 HET KKO C 401 55 HET KKO D 401 55 HETNAM KKO (2~{S})-1-(3,4-DICHLOROPHENYL)-4-(4-METHOXYPYRIDIN-3- HETNAM 2 KKO YL)CARBONYL-~{N}-(THIOPHEN-2-YLMETHYL)PIPERAZINE-2- HETNAM 3 KKO CARBOXAMIDE FORMUL 5 KKO 4(C23 H22 CL2 N4 O3 S) FORMUL 9 HOH *113(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 PHE A 66 5 5 HELIX 5 AA5 ILE A 200 ASN A 214 1 15 HELIX 6 AA6 THR A 226 TYR A 237 1 12 HELIX 7 AA7 THR A 243 GLY A 258 1 16 HELIX 8 AA8 ALA A 260 GLY A 275 1 16 HELIX 9 AA9 THR A 292 CYS A 300 1 9 HELIX 10 AB1 SER B 10 GLY B 15 1 6 HELIX 11 AB2 HIS B 41 CYS B 44 5 4 HELIX 12 AB3 ASN B 53 ARG B 60 1 8 HELIX 13 AB4 SER B 62 HIS B 64 5 3 HELIX 14 AB5 ILE B 200 ASN B 214 1 15 HELIX 15 AB6 THR B 226 TYR B 237 1 12 HELIX 16 AB7 THR B 243 GLY B 258 1 16 HELIX 17 AB8 ALA B 260 GLY B 275 1 16 HELIX 18 AB9 THR B 292 CYS B 300 1 9 HELIX 19 AC1 SER C 10 GLY C 15 1 6 HELIX 20 AC2 HIS C 41 CYS C 44 5 4 HELIX 21 AC3 THR C 45 MET C 49 5 5 HELIX 22 AC4 ASN C 53 ARG C 60 1 8 HELIX 23 AC5 SER C 62 PHE C 66 5 5 HELIX 24 AC6 ILE C 200 ASN C 214 1 15 HELIX 25 AC7 THR C 226 TYR C 237 1 12 HELIX 26 AC8 THR C 243 LEU C 250 1 8 HELIX 27 AC9 LEU C 250 GLY C 258 1 9 HELIX 28 AD1 ALA C 260 GLY C 275 1 16 HELIX 29 AD2 THR C 292 CYS C 300 1 9 HELIX 30 AD3 SER D 10 GLY D 15 1 6 HELIX 31 AD4 HIS D 41 CYS D 44 5 4 HELIX 32 AD5 TYR D 54 ARG D 60 1 7 HELIX 33 AD6 SER D 62 HIS D 64 5 3 HELIX 34 AD7 ILE D 200 ASN D 214 1 15 HELIX 35 AD8 THR D 226 LYS D 236 1 11 HELIX 36 AD9 THR D 243 GLY D 258 1 16 HELIX 37 AE1 ALA D 260 GLY D 275 1 16 HELIX 38 AE2 THR D 292 CYS D 300 1 9 SHEET 1 AA1 7 VAL A 73 LEU A 75 0 SHEET 2 AA1 7 LEU A 67 ALA A 70 -1 N ALA A 70 O VAL A 73 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 VAL A 35 N LEU A 32 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 TYR A 126 N VAL A 114 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 VAL B 68 O LEU B 75 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 THR B 25 N CYS B 22 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 ILE B 78 O LYS B 90 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 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 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 102 SHEET 3 AA6 3 HIS B 172 THR B 175 -1 O ALA B 173 N MET B 165 SHEET 1 AA7 7 VAL C 73 LEU C 75 0 SHEET 2 AA7 7 LEU C 67 ALA C 70 -1 N ALA C 70 O VAL C 73 SHEET 3 AA7 7 MET C 17 CYS C 22 -1 N GLN C 19 O GLN C 69 SHEET 4 AA7 7 THR C 25 LEU C 32 -1 O LEU C 27 N VAL C 20 SHEET 5 AA7 7 VAL C 35 PRO C 39 -1 O VAL C 35 N LEU C 32 SHEET 6 AA7 7 VAL C 86 VAL C 91 -1 O LEU C 87 N CYS C 38 SHEET 7 AA7 7 VAL C 77 GLN C 83 -1 N ILE C 78 O LYS C 90 SHEET 1 AA8 5 TYR C 101 PHE C 103 0 SHEET 2 AA8 5 CYS C 156 GLU C 166 1 O PHE C 159 N LYS C 102 SHEET 3 AA8 5 VAL C 148 ASP C 153 -1 N ASP C 153 O CYS C 156 SHEET 4 AA8 5 THR C 111 TYR C 118 -1 N SER C 113 O PHE C 150 SHEET 5 AA8 5 SER C 121 ALA C 129 -1 O TYR C 126 N VAL C 114 SHEET 1 AA9 3 TYR C 101 PHE C 103 0 SHEET 2 AA9 3 CYS C 156 GLU C 166 1 O PHE C 159 N LYS C 102 SHEET 3 AA9 3 HIS C 172 THR C 175 -1 O ALA C 173 N MET C 165 SHEET 1 AB1 7 VAL D 73 LEU D 75 0 SHEET 2 AB1 7 PHE D 66 ALA D 70 -1 N VAL D 68 O LEU D 75 SHEET 3 AB1 7 MET D 17 CYS D 22 -1 N THR D 21 O LEU D 67 SHEET 4 AB1 7 THR D 25 LEU D 32 -1 O GLY D 29 N VAL D 18 SHEET 5 AB1 7 VAL D 35 PRO D 39 -1 O VAL D 35 N LEU D 32 SHEET 6 AB1 7 VAL D 86 VAL D 91 -1 O LEU D 87 N CYS D 38 SHEET 7 AB1 7 VAL D 77 GLN D 83 -1 N SER D 81 O LYS D 88 SHEET 1 AB2 5 LYS D 100 PHE D 103 0 SHEET 2 AB2 5 CYS D 156 GLU D 166 1 O VAL D 157 N LYS D 100 SHEET 3 AB2 5 VAL D 148 ASP D 153 -1 N ASN D 151 O SER D 158 SHEET 4 AB2 5 THR D 111 TYR D 118 -1 N SER D 113 O PHE D 150 SHEET 5 AB2 5 SER D 121 ALA D 129 -1 O TYR D 126 N VAL D 114 SHEET 1 AB3 3 LYS D 100 PHE D 103 0 SHEET 2 AB3 3 CYS D 156 GLU D 166 1 O VAL D 157 N LYS D 100 SHEET 3 AB3 3 HIS D 172 THR D 175 -1 O ALA D 173 N MET D 165 CRYST1 44.301 211.631 62.947 90.00 110.67 90.00 P 1 21 1 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 0.022573 0.000000 0.008516 0.00000 SCALE2 0.000000 0.004725 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016979 0.00000