HEADER HYDROLASE 11-JUL-20 7CJM TITLE SARS COV-2 PLPRO IN COMPLEX WITH GRL0617 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NON-STRUCTURAL PROTEIN 3; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: PAPAIN-LIKE PROTEINASE,NSP3,PL2-PRO,PL-PRO,PAPAIN-LIKE COMPND 5 PROTEASE; COMPND 6 EC: 3.4.19.121, 3.4.22.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: 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 GENE: REP, 1A-1B; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS PLPRO-C111S, GRL0617, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.FU,H.HUANG REVDAT 5 16-OCT-24 7CJM 1 REMARK REVDAT 4 29-NOV-23 7CJM 1 REMARK REVDAT 3 24-MAR-21 7CJM 1 JRNL REVDAT 2 10-MAR-21 7CJM 1 COMPND REVDAT 1 02-SEP-20 7CJM 0 JRNL AUTH Z.FU,B.HUANG,J.TANG,S.LIU,M.LIU,Y.YE,Z.LIU,Y.XIONG,W.ZHU, JRNL AUTH 2 D.CAO,J.LI,X.NIU,H.ZHOU,Y.J.ZHAO,G.ZHANG,H.HUANG JRNL TITL THE COMPLEX STRUCTURE OF GRL0617 AND SARS-COV-2 PLPRO JRNL TITL 2 REVEALS A HOT SPOT FOR ANTIVIRAL DRUG DISCOVERY. JRNL REF NAT COMMUN V. 12 488 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 33473130 JRNL DOI 10.1038/S41467-020-20718-8 REMARK 2 REMARK 2 RESOLUTION. 3.20 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) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.30 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 11929 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.269 REMARK 3 R VALUE (WORKING SET) : 0.268 REMARK 3 FREE R VALUE : 0.286 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.820 REMARK 3 FREE R VALUE TEST SET COUNT : 575 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 22.3000 - 5.0600 0.99 2976 134 0.2596 0.2636 REMARK 3 2 5.0600 - 4.0300 0.99 2808 156 0.2415 0.2585 REMARK 3 3 4.0300 - 3.5200 1.00 2803 142 0.2759 0.3199 REMARK 3 4 3.5200 - 3.2000 0.99 2767 143 0.3151 0.3130 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) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.090 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.89 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.91 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 7CJM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-JUL-20. REMARK 100 THE DEPOSITION ID IS D_1300017723. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUN-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : RIGAKU HYPIX-6000HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11963 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200 REMARK 200 RESOLUTION RANGE LOW (A) : 22.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.19020 REMARK 200 R SYM (I) : 0.08124 REMARK 200 FOR THE DATA SET : 12.9200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.48740 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.270 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 6WRH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 74.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12% PEG 3350, 0.1M TRIS PH 7.5, 0.005M REMARK 280 COBALT(II) CHLORIDE HEXAHYDRATE, 0.005M CADMIUM CHLORIDE REMARK 280 HEMI(PENTAHYDRATE), 0.005M MAGNESIUM CHLORIDE HEXAHYDRATE, REMARK 280 0.005M NICKEL(II) CHLORIDE HEXAHYDRATE, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 283K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 56.14700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 56.14700 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 110.18950 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 56.14700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 55.09475 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 56.14700 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 165.28425 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 56.14700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 165.28425 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 56.14700 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 55.09475 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 56.14700 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 56.14700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 110.18950 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 56.14700 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 56.14700 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 110.18950 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 56.14700 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 165.28425 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 56.14700 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 55.09475 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 56.14700 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 55.09475 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 56.14700 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 165.28425 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 56.14700 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 56.14700 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 110.18950 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: 80 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 OD2 ASP B 62 ND2 ASN B 128 10555 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 TYR B 296 C LYS B 297 N 0.158 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 GLU B 295 CA - C - N ANGL. DEV. = -18.8 DEGREES REMARK 500 GLU B 295 O - C - N ANGL. DEV. = 17.7 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 ILE B 14 -60.27 -106.80 REMARK 500 ALA B 107 147.60 -172.47 REMARK 500 THR B 259 -60.04 -96.14 REMARK 500 GLN B 269 -31.34 78.76 REMARK 500 LYS B 279 -164.08 -129.38 REMARK 500 REMARK 500 REMARK: NULL 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 ZN B 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 89 ND1 REMARK 620 2 ASP B 108 OD1 121.9 REMARK 620 3 ASP B 108 OD2 97.5 54.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 404 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 192 SG REMARK 620 2 CYS B 224 SG 136.4 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TTT B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 404 DBREF 7CJM B 1 315 UNP P0DTD1 R1AB_SARS2 1564 1878 SEQADV 7CJM ALA B 0 UNP P0DTD1 EXPRESSION TAG SEQADV 7CJM SER B 111 UNP P0DTD1 CYS 1674 ENGINEERED MUTATION SEQRES 1 B 316 ALA GLU VAL ARG THR ILE LYS VAL PHE THR THR VAL ASP SEQRES 2 B 316 ASN ILE ASN LEU HIS THR GLN VAL VAL ASP MET SER MET SEQRES 3 B 316 THR TYR GLY GLN GLN PHE GLY PRO THR TYR LEU ASP GLY SEQRES 4 B 316 ALA ASP VAL THR LYS ILE LYS PRO HIS ASN SER HIS GLU SEQRES 5 B 316 GLY LYS THR PHE TYR VAL LEU PRO ASN ASP ASP THR LEU SEQRES 6 B 316 ARG VAL GLU ALA PHE GLU TYR TYR HIS THR THR ASP PRO SEQRES 7 B 316 SER PHE LEU GLY ARG TYR MET SER ALA LEU ASN HIS THR SEQRES 8 B 316 LYS LYS TRP LYS TYR PRO GLN VAL ASN GLY LEU THR SER SEQRES 9 B 316 ILE LYS TRP ALA ASP ASN ASN SER TYR LEU ALA THR ALA SEQRES 10 B 316 LEU LEU THR LEU GLN GLN ILE GLU LEU LYS PHE ASN PRO SEQRES 11 B 316 PRO ALA LEU GLN ASP ALA TYR TYR ARG ALA ARG ALA GLY SEQRES 12 B 316 GLU ALA ALA ASN PHE CYS ALA LEU ILE LEU ALA TYR CYS SEQRES 13 B 316 ASN LYS THR VAL GLY GLU LEU GLY ASP VAL ARG GLU THR SEQRES 14 B 316 MET SER TYR LEU PHE GLN HIS ALA ASN LEU ASP SER CYS SEQRES 15 B 316 LYS ARG VAL LEU ASN VAL VAL CYS LYS THR CYS GLY GLN SEQRES 16 B 316 GLN GLN THR THR LEU LYS GLY VAL GLU ALA VAL MET TYR SEQRES 17 B 316 MET GLY THR LEU SER TYR GLU GLN PHE LYS LYS GLY VAL SEQRES 18 B 316 GLN ILE PRO CYS THR CYS GLY LYS GLN ALA THR LYS TYR SEQRES 19 B 316 LEU VAL GLN GLN GLU SER PRO PHE VAL MET MET SER ALA SEQRES 20 B 316 PRO PRO ALA GLN TYR GLU LEU LYS HIS GLY THR PHE THR SEQRES 21 B 316 CYS ALA SER GLU TYR THR GLY ASN TYR GLN CYS GLY HIS SEQRES 22 B 316 TYR LYS HIS ILE THR SER LYS GLU THR LEU TYR CYS ILE SEQRES 23 B 316 ASP GLY ALA LEU LEU THR LYS SER SER GLU TYR LYS GLY SEQRES 24 B 316 PRO ILE THR ASP VAL PHE TYR LYS GLU ASN SER TYR THR SEQRES 25 B 316 THR THR ILE LYS HET TTT B 401 23 HET ZN B 402 1 HET ZN B 403 1 HET ZN B 404 1 HETNAM TTT 5-AMINO-2-METHYL-N-[(1R)-1-NAPHTHALEN-1- HETNAM 2 TTT YLETHYL]BENZAMIDE HETNAM ZN ZINC ION FORMUL 2 TTT C20 H20 N2 O FORMUL 3 ZN 3(ZN 2+) HELIX 1 AA1 THR B 26 GLY B 32 1 7 HELIX 2 AA2 ASP B 61 HIS B 73 1 13 HELIX 3 AA3 SER B 78 LYS B 91 1 14 HELIX 4 AA4 ASN B 110 GLN B 121 1 12 HELIX 5 AA5 PRO B 129 ALA B 141 1 13 HELIX 6 AA6 ALA B 144 CYS B 155 1 12 HELIX 7 AA7 ASP B 164 HIS B 175 1 12 HELIX 8 AA8 GLY B 201 VAL B 205 1 5 HELIX 9 AA9 SER B 212 GLY B 219 1 8 SHEET 1 AA1 5 HIS B 17 ASP B 22 0 SHEET 2 AA1 5 THR B 4 THR B 10 -1 N THR B 9 O HIS B 17 SHEET 3 AA1 5 THR B 54 VAL B 57 1 O PHE B 55 N PHE B 8 SHEET 4 AA1 5 THR B 34 LEU B 36 -1 N TYR B 35 O TYR B 56 SHEET 5 AA1 5 ALA B 39 ASP B 40 -1 O ALA B 39 N LEU B 36 SHEET 1 AA2 2 GLN B 97 VAL B 98 0 SHEET 2 AA2 2 LEU B 101 THR B 102 -1 O LEU B 101 N VAL B 98 SHEET 1 AA3 4 GLY B 193 LYS B 200 0 SHEET 2 AA3 4 LYS B 182 CYS B 189 -1 N ARG B 183 O LEU B 199 SHEET 3 AA3 4 ALA B 230 GLU B 238 -1 O GLN B 236 N VAL B 184 SHEET 4 AA3 4 VAL B 220 ILE B 222 -1 N ILE B 222 O ALA B 230 SHEET 1 AA4 4 GLY B 193 LYS B 200 0 SHEET 2 AA4 4 LYS B 182 CYS B 189 -1 N ARG B 183 O LEU B 199 SHEET 3 AA4 4 ALA B 230 GLU B 238 -1 O GLN B 236 N VAL B 184 SHEET 4 AA4 4 TYR B 310 THR B 311 -1 O TYR B 310 N GLN B 237 SHEET 1 AA5 7 MET B 206 MET B 208 0 SHEET 2 AA5 7 PHE B 241 LEU B 253 1 O SER B 245 N TYR B 207 SHEET 3 AA5 7 TYR B 296 LYS B 306 -1 O TYR B 296 N LEU B 253 SHEET 4 AA5 7 CYS B 260 THR B 265 -1 N CYS B 260 O PHE B 304 SHEET 5 AA5 7 HIS B 272 SER B 278 -1 O LYS B 274 N GLU B 263 SHEET 6 AA5 7 LEU B 282 ASP B 286 -1 O ILE B 285 N HIS B 275 SHEET 7 AA5 7 LEU B 289 SER B 293 -1 O THR B 291 N CYS B 284 SSBOND 1 CYS B 189 CYS B 224 1555 1555 2.99 LINK ND1 HIS B 89 ZN ZN B 403 1555 1555 2.30 LINK OD1 ASP B 108 ZN ZN B 403 1555 1555 2.65 LINK OD2 ASP B 108 ZN ZN B 403 1555 1555 2.02 LINK SG CYS B 192 ZN ZN B 404 1555 1555 2.30 LINK SG CYS B 224 ZN ZN B 404 1555 1555 2.29 SITE 1 AC1 8 GLY B 163 ASP B 164 GLU B 167 PRO B 248 SITE 2 AC1 8 TYR B 264 TYR B 268 GLN B 269 TYR B 273 SITE 1 AC2 2 ASP B 62 HIS B 73 SITE 1 AC3 3 HIS B 89 ASP B 108 CYS B 270 SITE 1 AC4 4 CYS B 189 CYS B 192 CYS B 224 CYS B 226 CRYST1 112.294 112.294 220.379 90.00 90.00 90.00 I 41 2 2 16 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 0.008905 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008905 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004538 0.00000