HEADER VIRAL PROTEIN 17-NOV-20 7KQW TITLE CRYSTAL STRUCTURE OF SARS-COV-2 NSP3 MACRODOMAIN (C2 CRYSTAL FORM, TITLE 2 METHYLATED) COMPND MOL_ID: 1; COMPND 2 MOLECULE: NON-STRUCTURAL PROTEIN 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MACRODOMAIN (UNP RESIDUES 1024-1192); COMPND 5 SYNONYM: NSP3,PL2-PRO,PAPAIN-LIKE PROTEASE,PAPAIN-LIKE PROTEINASE,PL- COMPND 6 PRO; COMPND 7 EC: 3.4.19.121, 3.4.22.-; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 3 2; SOURCE 4 ORGANISM_COMMON: 2019-NCOV; SOURCE 5 ORGANISM_TAXID: 2697049; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS MACRODOMAIN, ADP-RIBOSE, SARS-COV-2, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.J.CORREY,I.D.YOUNG,M.C.THOMPSON,J.S.FRASER REVDAT 5 15-NOV-23 7KQW 1 ATOM REVDAT 4 18-OCT-23 7KQW 1 REMARK REVDAT 3 30-JUN-21 7KQW 1 JRNL REVDAT 2 27-JAN-21 7KQW 1 COMPND REVDAT 1 09-DEC-20 7KQW 0 JRNL AUTH M.SCHULLER,G.J.CORREY,S.GAHBAUER,D.FEARON,T.WU,R.E.DIAZ, JRNL AUTH 2 I.D.YOUNG,L.CARVALHO MARTINS,D.H.SMITH,U.SCHULZE-GAHMEN, JRNL AUTH 3 T.W.OWENS,I.DESHPANDE,G.E.MERZ,A.C.THWIN,J.T.BIEL, JRNL AUTH 4 J.K.PETERS,M.MORITZ,N.HERRERA,H.T.KRATOCHVIL,A.AIMON, JRNL AUTH 5 J.M.BENNETT,J.BRANDAO NETO,A.E.COHEN,A.DIAS,A.DOUANGAMATH, JRNL AUTH 6 L.DUNNETT,O.FEDOROV,M.P.FERLA,M.R.FUCHS,T.J.GORRIE-STONE, JRNL AUTH 7 J.M.HOLTON,M.G.JOHNSON,T.KROJER,G.MEIGS,A.J.POWELL, JRNL AUTH 8 J.G.M.RACK,V.L.RANGEL,S.RUSSI,R.E.SKYNER,C.A.SMITH, JRNL AUTH 9 A.S.SOARES,J.L.WIERMAN,K.ZHU,P.O'BRIEN,N.JURA,A.ASHWORTH, JRNL AUTH10 J.J.IRWIN,M.C.THOMPSON,J.E.GESTWICKI,F.VON DELFT, JRNL AUTH11 B.K.SHOICHET,J.S.FRASER,I.AHEL JRNL TITL FRAGMENT BINDING TO THE NSP3 MACRODOMAIN OF SARS-COV-2 JRNL TITL 2 IDENTIFIED THROUGH CRYSTALLOGRAPHIC SCREENING AND JRNL TITL 3 COMPUTATIONAL DOCKING. JRNL REF SCI ADV V. 7 2021 JRNL REFN ESSN 2375-2548 JRNL PMID 33853786 JRNL DOI 10.1126/SCIADV.ABF8711 REMARK 2 REMARK 2 RESOLUTION. 0.93 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18.2_3874 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) : 0.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.42 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 98177 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.129 REMARK 3 R VALUE (WORKING SET) : 0.128 REMARK 3 FREE R VALUE : 0.147 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 4806 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 35.4200 - 2.8900 0.98 3397 146 0.1222 0.1443 REMARK 3 2 2.8900 - 2.2900 0.98 3279 151 0.1214 0.1323 REMARK 3 3 2.2900 - 2.0000 0.97 3227 169 0.1129 0.1353 REMARK 3 4 2.0000 - 1.8200 0.98 3267 153 0.1210 0.1354 REMARK 3 5 1.8200 - 1.6900 0.97 3207 147 0.1180 0.1423 REMARK 3 6 1.6900 - 1.5900 0.97 3170 184 0.1100 0.1385 REMARK 3 7 1.5900 - 1.5100 0.97 3212 171 0.1073 0.1175 REMARK 3 8 1.5100 - 1.4400 0.97 3199 161 0.1114 0.1365 REMARK 3 9 1.4400 - 1.3900 0.97 3158 162 0.1098 0.1380 REMARK 3 10 1.3900 - 1.3400 0.96 3192 154 0.1131 0.1376 REMARK 3 11 1.3400 - 1.3000 0.96 3123 169 0.1143 0.1358 REMARK 3 12 1.3000 - 1.2600 0.96 3159 168 0.1189 0.1376 REMARK 3 13 1.2600 - 1.2300 0.96 3125 148 0.1180 0.1427 REMARK 3 14 1.2300 - 1.2000 0.95 3108 178 0.1202 0.1356 REMARK 3 15 1.2000 - 1.1700 0.95 3120 164 0.1223 0.1553 REMARK 3 16 1.1700 - 1.1500 0.95 3094 165 0.1242 0.1328 REMARK 3 17 1.1500 - 1.1200 0.94 3093 160 0.1285 0.1396 REMARK 3 18 1.1200 - 1.1000 0.94 3089 148 0.1307 0.1451 REMARK 3 19 1.1000 - 1.0800 0.94 3094 154 0.1460 0.1498 REMARK 3 20 1.0800 - 1.0600 0.93 3008 163 0.1592 0.1612 REMARK 3 21 1.0600 - 1.0500 0.95 3123 148 0.1859 0.2066 REMARK 3 22 1.0500 - 1.0300 0.93 3074 155 0.2127 0.2329 REMARK 3 23 1.0300 - 1.0200 0.93 2989 173 0.2285 0.2284 REMARK 3 24 1.0200 - 1.0000 0.93 3050 143 0.2404 0.2425 REMARK 3 25 1.0000 - 0.9900 0.93 3029 156 0.2757 0.2852 REMARK 3 26 0.9900 - 0.9800 0.91 3033 152 0.2851 0.3296 REMARK 3 27 0.9800 - 0.9600 0.92 2975 153 0.2908 0.3003 REMARK 3 28 0.9600 - 0.9500 0.91 2967 197 0.3138 0.2941 REMARK 3 29 0.9500 - 0.9400 0.90 2918 160 0.3307 0.3492 REMARK 3 30 0.9400 - 0.9300 0.89 2892 154 0.3573 0.3689 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) : 0.110 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.890 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.83 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.69 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 7KQW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-NOV-20. REMARK 100 THE DEPOSITION ID IS D_1000253009. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-AUG-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS-II REMARK 200 BEAMLINE : 17-ID-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.77492 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 0.94 REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 103671 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.930 REMARK 200 RESOLUTION RANGE LOW (A) : 35.420 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 200 DATA REDUNDANCY : 1.827 REMARK 200 R MERGE (I) : 0.03500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.4400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.93 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.7 REMARK 200 DATA REDUNDANCY IN SHELL : 1.86 REMARK 200 R MERGE FOR SHELL (I) : 0.97900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.610 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.3 REMARK 200 STARTING MODEL: PDB ENTRY 7KR0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM TRIS, PH 8.5, 100 MM SODIUM REMARK 280 ACETATE, 28% PEG4000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K 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 64.57300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 15.32350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 64.57300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 15.32350 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 304 LIES ON A SPECIAL POSITION. 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 HZ2 LYS A 102 O HOH A 202 1.54 REMARK 500 O HOH A 434 O HOH A 460 2.01 REMARK 500 O HOH A 404 O HOH A 407 2.11 REMARK 500 NZ LYS A 102 O HOH A 202 2.12 REMARK 500 O HOH A 212 O HOH A 368 2.12 REMARK 500 O HOH A 246 O HOH A 307 2.14 REMARK 500 O VAL A 30 O HOH A 204 2.15 REMARK 500 OE1 GLU A 25 O HOH A 206 2.18 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 HD22 ASN A 72 O HOH A 368 4546 1.60 REMARK 500 ND2 ASN A 72 O HOH A 368 4546 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU A 126 CB - CG - CD1 ANGL. DEV. = 13.6 DEGREES 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 ASN A 72 10.91 -149.69 REMARK 500 HIS A 86 -131.50 55.04 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 488 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A 489 DISTANCE = 6.04 ANGSTROMS REMARK 525 HOH A 490 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH A 491 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH A 492 DISTANCE = 6.87 ANGSTROMS REMARK 525 HOH A 493 DISTANCE = 7.22 ANGSTROMS DBREF 7KQW A 2 170 UNP P0DTD1 R1AB_SARS2 1024 1192 SEQADV 7KQW SNM A -2 UNP P0DTD1 EXPRESSION TAG SEQADV 7KQW ASN A -1 UNP P0DTD1 EXPRESSION TAG SEQADV 7KQW ALA A 0 UNP P0DTD1 EXPRESSION TAG SEQADV 7KQW GLY A 1 UNP P0DTD1 EXPRESSION TAG SEQRES 1 A 173 SNM ASN ALA GLY GLU VAL ASN SER PHE SER GLY TYR LEU SEQRES 2 A 173 MLY LEU THR ASP ASN VAL TYR ILE LYS ASN ALA ASP ILE SEQRES 3 A 173 VAL GLU GLU ALA MLY LYS VAL LYS PRO THR VAL VAL VAL SEQRES 4 A 173 ASN ALA ALA ASN VAL TYR LEU LYS HIS GLY GLY GLY VAL SEQRES 5 A 173 ALA GLY ALA LEU ASN LYS ALA THR ASN ASN ALA MET GLN SEQRES 6 A 173 VAL GLU SER ASP ASP TYR ILE ALA THR ASN GLY PRO LEU SEQRES 7 A 173 LYS VAL GLY GLY SER CYS VAL LEU SER GLY HIS ASN LEU SEQRES 8 A 173 ALA LYS HIS CYS LEU HIS VAL VAL GLY PRO ASN VAL ASN SEQRES 9 A 173 LYS GLY GLU ASP ILE GLN LEU LEU LYS SER ALA TYR GLU SEQRES 10 A 173 ASN PHE ASN GLN HIS GLU VAL LEU LEU ALA PRO LEU LEU SEQRES 11 A 173 SER ALA GLY ILE PHE GLY ALA ASP PRO ILE HIS SER LEU SEQRES 12 A 173 ARG VAL CYS VAL ASP THR VAL ARG THR ASN VAL TYR LEU SEQRES 13 A 173 ALA VAL PHE ASP MLY ASN LEU TYR ASP MLY LEU VAL SER SEQRES 14 A 173 SER PHE LEU GLU MODRES 7KQW MLY A 11 LYS MODIFIED RESIDUE MODRES 7KQW MLY A 28 LYS MODIFIED RESIDUE MODRES 7KQW MLY A 158 LYS MODIFIED RESIDUE MODRES 7KQW MLY A 163 LYS MODIFIED RESIDUE HET SNM A -2 18 HET MLY A 11 27 HET MLY A 28 27 HET MLY A 158 27 HET MLY A 163 27 HETNAM SNM N,N-DIMETHYL-L-SERINE HETNAM MLY N-DIMETHYL-LYSINE FORMUL 1 SNM C5 H11 N O3 FORMUL 1 MLY 4(C8 H18 N2 O2) FORMUL 2 HOH *293(H2 O) HELIX 1 AA1 ASP A 22 LYS A 31 1 10 HELIX 2 AA2 GLY A 47 THR A 57 1 11 HELIX 3 AA3 ASN A 59 GLY A 73 1 15 HELIX 4 AA4 ASN A 99 GLY A 103 5 5 HELIX 5 AA5 GLN A 107 ASN A 115 1 9 HELIX 6 AA6 PHE A 116 HIS A 119 5 4 HELIX 7 AA7 ALA A 129 GLY A 133 5 5 HELIX 8 AA8 ASP A 135 VAL A 147 1 13 HELIX 9 AA9 ASP A 157 GLU A 170 1 14 SHEET 1 AA1 4 LEU A 10 MLY A 11 0 SHEET 2 AA1 4 VAL A 16 LYS A 19 -1 O ILE A 18 N LEU A 10 SHEET 3 AA1 4 ASN A 150 ALA A 154 1 O LEU A 153 N TYR A 17 SHEET 4 AA1 4 VAL A 121 ALA A 124 1 N LEU A 122 O TYR A 152 SHEET 1 AA2 3 VAL A 34 ALA A 38 0 SHEET 2 AA2 3 HIS A 91 VAL A 95 1 O VAL A 95 N ASN A 37 SHEET 3 AA2 3 SER A 80 SER A 84 -1 N CYS A 81 O HIS A 94 LINK C SNM A -2 N ASN A -1 1555 1555 1.43 LINK C LEU A 10 N MLY A 11 1555 1555 1.32 LINK C MLY A 11 N LEU A 12 1555 1555 1.33 LINK C ALA A 27 N MLY A 28 1555 1555 1.33 LINK C MLY A 28 N LYS A 29 1555 1555 1.33 LINK C ASP A 157 N MLY A 158 1555 1555 1.33 LINK C MLY A 158 N AASN A 159 1555 1555 1.33 LINK C MLY A 158 N BASN A 159 1555 1555 1.33 LINK C ASP A 162 N MLY A 163 1555 1555 1.33 LINK C MLY A 163 N LEU A 164 1555 1555 1.33 CRYST1 129.146 30.647 39.608 90.00 96.69 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 0.007743 0.000000 0.000908 0.00000 SCALE2 0.000000 0.032630 0.000000 0.00000 SCALE3 0.000000 0.000000 0.025421 0.00000 HETATM 1 N SNM A -2 13.038 -9.158 4.694 1.00 16.26 N ANISOU 1 N SNM A -2 1520 2310 2348 -93 -259 357 N HETATM 2 CA SNM A -2 11.972 -8.181 4.890 1.00 15.85 C ANISOU 2 CA SNM A -2 1504 2149 2367 64 -367 548 C HETATM 3 CB SNM A -2 11.111 -8.044 3.639 1.00 17.76 C ANISOU 3 CB SNM A -2 1522 2446 2779 -14 -447 535 C HETATM 4 OG SNM A -2 9.934 -7.317 3.918 1.00 18.30 O ANISOU 4 OG SNM A -2 1503 2504 2945 -104 -616 695 O HETATM 5 C SNM A -2 11.043 -8.670 5.996 1.00 15.25 C ANISOU 5 C SNM A -2 1530 2022 2244 -6 -283 600 C HETATM 6 O SNM A -2 10.402 -9.664 5.867 1.00 15.11 O ANISOU 6 O SNM A -2 1536 1967 2240 -207 -244 410 O HETATM 7 C1 SNM A -2 13.824 -9.343 5.905 1.00 16.96 C ANISOU 7 C1 SNM A -2 1551 2518 2376 -101 -448 164 C HETATM 8 C2 SNM A -2 13.904 -8.770 3.590 1.00 18.56 C ANISOU 8 C2 SNM A -2 1590 2775 2688 -242 97 275 C HETATM 9 HA SNM A -2 12.390 -7.333 5.106 1.00 19.02 H HETATM 10 H3 SNM A -2 11.617 -7.578 2.955 1.00 21.31 H HETATM 11 H4 SNM A -2 10.869 -8.929 3.321 1.00 21.31 H HETATM 12 H5 SNM A -2 9.925 -6.609 3.446 1.00 21.96 H HETATM 13 H6 SNM A -2 13.314 -9.865 6.544 1.00 20.36 H HETATM 14 H7 SNM A -2 14.646 -9.809 5.689 1.00 20.36 H HETATM 15 H8 SNM A -2 14.034 -8.477 6.289 1.00 20.36 H HETATM 16 H9 SNM A -2 14.085 -7.818 3.641 1.00 22.27 H HETATM 17 H10 SNM A -2 13.465 -8.971 2.749 1.00 22.27 H HETATM 18 H11 SNM A -2 14.738 -9.262 3.645 1.00 22.27 H