HEADER HYDROLASE/HYDROLASE INHIBITOR 03-MAR-22 5SLS TITLE PANDDA ANALYSIS GROUP DEPOSITION -- CRYSTAL STRUCTURE OF SARS-COV-2 TITLE 2 NSP14 IN COMPLEX WITH Z1373445602 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROOFREADING EXORIBONUCLEASE NSP14; COMPND 3 CHAIN: D; COMPND 4 SYNONYM: EXON,GUANINE-N7 METHYLTRANSFERASE,NON-STRUCTURAL PROTEIN 14, COMPND 5 NSP14; COMPND 6 EC: 3.1.13.-; 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 SGC - DIAMOND I04-1 FRAGMENT SCREENING, PANDDA, XCHEMEXPLORER, KEYWDS 2 HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.IMPRACHIM,Y.YOSAATMADJA,F.VON-DELFT,C.BOUNTRA,O.GILEADI,J.A.NEWMAN REVDAT 1 16-MAR-22 5SLS 0 JRNL AUTH N.IMPRACHIM,Y.YOSAATMADJA,F.VON-DELFT,C.BOUNTRA,O.GILEADI, JRNL AUTH 2 J.A.NEWMAN JRNL TITL PANDDA ANALYSIS GROUP DEPOSITION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.29 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.4 (20-OCT-2021) REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.29 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 28330 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.239 REMARK 3 R VALUE (WORKING SET) : 0.236 REMARK 3 FREE R VALUE : 0.293 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.830 REMARK 3 FREE R VALUE TEST SET COUNT : 1368 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 51 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.29 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.32 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 47.59 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 567 REMARK 3 BIN R VALUE (WORKING + TEST SET) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 546 REMARK 3 BIN R VALUE (WORKING SET) : 0.5790 REMARK 3 BIN FREE R VALUE : 0.5532 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 3.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 21 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3666 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 419 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 61.21 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 79.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 32.66140 REMARK 3 B22 (A**2) : -44.09350 REMARK 3 B33 (A**2) : 11.43210 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.740 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.371 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.269 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.321 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.257 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.899 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.852 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 3800 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 5162 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1255 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 635 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 3800 ; 10.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 481 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3400 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 0.96 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.09 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.28 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { D|* } REMARK 3 ORIGIN FOR THE GROUP (A): 60.1509 10.6677 85.9510 REMARK 3 T TENSOR REMARK 3 T11: 0.4156 T22: -0.2327 REMARK 3 T33: -0.2092 T12: -0.1398 REMARK 3 T13: -0.0047 T23: -0.0221 REMARK 3 L TENSOR REMARK 3 L11: 0.7388 L22: 0.9721 REMARK 3 L33: 2.2673 L12: -1.0130 REMARK 3 L13: -0.9472 L23: 1.0407 REMARK 3 S TENSOR REMARK 3 S11: -0.0746 S12: -0.0308 S13: -0.0586 REMARK 3 S21: -0.0240 S22: -0.0090 S23: 0.0634 REMARK 3 S31: 0.0134 S32: -0.0318 S33: 0.0836 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5SLS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAR-22. REMARK 100 THE DEPOSITION ID IS D_1001404667. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-FEB-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.91788 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.7 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29275 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.290 REMARK 200 RESOLUTION RANGE LOW (A) : 69.410 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.21500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.29 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : 4.41500 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 7QGI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.26 M SODIUM PHOSPHATE MONOBASIC, REMARK 280 0.14 M POTASSIUM PHOSPHATE DIBASIC, PH 6, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 278K 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 33.75400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.44600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.62900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.44600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.75400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.62900 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 APPLY THE FOLLOWING TO CHAINS: 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 SER D 5 REMARK 465 MET D 6 REMARK 465 LEU D 7 REMARK 465 PHE D 8 REMARK 465 LYS D 9 REMARK 465 ASP D 10 REMARK 465 CYS D 11 REMARK 465 SER D 12 REMARK 465 LYS D 13 REMARK 465 VAL D 14 REMARK 465 ILE D 15 REMARK 465 THR D 16 REMARK 465 GLY D 17 REMARK 465 LEU D 18 REMARK 465 HIS D 19 REMARK 465 PRO D 20 REMARK 465 THR D 21 REMARK 465 GLN D 22 REMARK 465 ALA D 23 REMARK 465 ALA D 96 REMARK 465 THR D 97 REMARK 465 ARG D 98 REMARK 465 GLU D 99 REMARK 465 ALA D 100 REMARK 465 VAL D 101 REMARK 465 GLY D 123 REMARK 465 TYR D 124 REMARK 465 VAL D 125 REMARK 465 ASP D 126 REMARK 465 THR D 127 REMARK 465 PRO D 128 REMARK 465 ASN D 129 REMARK 465 ASN D 130 REMARK 465 THR D 131 REMARK 465 ASP D 132 REMARK 465 PHE D 133 REMARK 465 SER D 134 REMARK 465 ARG D 135 REMARK 465 VAL D 136 REMARK 465 SER D 137 REMARK 465 ALA D 138 REMARK 465 LYS D 139 REMARK 465 PRO D 140 REMARK 465 PRO D 141 REMARK 465 PRO D 142 REMARK 465 GLY D 143 REMARK 465 ASP D 144 REMARK 465 GLN D 145 REMARK 465 PHE D 146 REMARK 465 LYS D 147 REMARK 465 HIS D 148 REMARK 465 LEU D 149 REMARK 465 ILE D 150 REMARK 465 ALA D 371 REMARK 465 THR D 372 REMARK 465 LYS D 457 REMARK 465 GLN D 458 REMARK 465 VAL D 459 REMARK 465 VAL D 460 REMARK 465 SER D 461 REMARK 465 ASP D 462 REMARK 465 ARG D 525 REMARK 465 LEU D 526 REMARK 465 GLN D 527 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 HIS D 95 CG ND1 CD2 CE1 NE2 REMARK 470 ASN D 104 CG OD1 ND2 REMARK 470 HIS D 373 CG ND1 CD2 CE1 NE2 REMARK 470 SER D 374 OG REMARK 470 LYS D 376 CG CD CE NZ REMARK 470 ILE D 463 CG1 CG2 CD1 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 O HOH D 1080 O HOH D 1104 3756 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 TYR D 64 71.69 46.47 REMARK 500 VAL D 66 43.25 -92.18 REMARK 500 ASN D 67 64.95 -111.31 REMARK 500 THR D 103 -5.97 56.99 REMARK 500 LEU D 152 89.60 -51.43 REMARK 500 ASP D 291 77.25 -114.03 REMARK 500 TRP D 292 4.78 -66.02 REMARK 500 LYS D 325 54.00 39.77 REMARK 500 ASN D 334 118.70 -31.91 REMARK 500 VAL D 346 155.40 -48.45 REMARK 500 ASP D 358 -84.64 -75.65 REMARK 500 PHE D 367 -60.36 -93.94 REMARK 500 TYR D 368 -176.02 -66.55 REMARK 500 SER D 369 0.82 89.79 REMARK 500 ASP D 375 -25.39 67.48 REMARK 500 ASN D 395 55.90 -100.04 REMARK 500 LYS D 423 -37.37 75.62 REMARK 500 HIS D 455 86.85 53.41 REMARK 500 PRO D 467 122.22 -29.21 REMARK 500 ALA D 504 8.90 -67.09 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 D1112 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH D1113 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH D1114 DISTANCE = 6.08 ANGSTROMS REMARK 525 HOH D1115 DISTANCE = 6.17 ANGSTROMS REMARK 525 HOH D1116 DISTANCE = 6.24 ANGSTROMS REMARK 525 HOH D1117 DISTANCE = 6.36 ANGSTROMS REMARK 525 HOH D1118 DISTANCE = 6.81 ANGSTROMS REMARK 525 HOH D1119 DISTANCE = 6.95 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 ZN D 603 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 207 SG REMARK 620 2 CYS D 210 SG 121.3 REMARK 620 3 CYS D 226 SG 113.4 106.8 REMARK 620 4 HIS D 229 ND1 104.9 117.0 88.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D 257 NE2 REMARK 620 2 CYS D 261 SG 113.4 REMARK 620 3 HIS D 264 ND1 105.5 107.3 REMARK 620 4 CYS D 279 SG 107.6 114.0 108.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 602 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 452 SG REMARK 620 2 CYS D 477 SG 116.3 REMARK 620 3 CYS D 484 SG 104.8 110.5 REMARK 620 4 HIS D 487 ND1 108.7 109.7 106.3 REMARK 620 N 1 2 3 DBREF 5SLS D 7 527 UNP P0DTD1 R1AB_SARS2 5932 6452 SEQADV 5SLS SER D 5 UNP P0DTD1 EXPRESSION TAG SEQADV 5SLS MET D 6 UNP P0DTD1 EXPRESSION TAG SEQRES 1 D 523 SER MET LEU PHE LYS ASP CYS SER LYS VAL ILE THR GLY SEQRES 2 D 523 LEU HIS PRO THR GLN ALA PRO THR HIS LEU SER VAL ASP SEQRES 3 D 523 THR LYS PHE LYS THR GLU GLY LEU CYS VAL ASP ILE PRO SEQRES 4 D 523 GLY ILE PRO LYS ASP MET THR TYR ARG ARG LEU ILE SER SEQRES 5 D 523 MET MET GLY PHE LYS MET ASN TYR GLN VAL ASN GLY TYR SEQRES 6 D 523 PRO ASN MET PHE ILE THR ARG GLU GLU ALA ILE ARG HIS SEQRES 7 D 523 VAL ARG ALA TRP ILE GLY PHE ASP VAL GLU GLY CYS HIS SEQRES 8 D 523 ALA THR ARG GLU ALA VAL GLY THR ASN LEU PRO LEU GLN SEQRES 9 D 523 LEU GLY PHE SER THR GLY VAL ASN LEU VAL ALA VAL PRO SEQRES 10 D 523 THR GLY TYR VAL ASP THR PRO ASN ASN THR ASP PHE SER SEQRES 11 D 523 ARG VAL SER ALA LYS PRO PRO PRO GLY ASP GLN PHE LYS SEQRES 12 D 523 HIS LEU ILE PRO LEU MET TYR LYS GLY LEU PRO TRP ASN SEQRES 13 D 523 VAL VAL ARG ILE LYS ILE VAL GLN MET LEU SER ASP THR SEQRES 14 D 523 LEU LYS ASN LEU SER ASP ARG VAL VAL PHE VAL LEU TRP SEQRES 15 D 523 ALA HIS GLY PHE GLU LEU THR SER MET LYS TYR PHE VAL SEQRES 16 D 523 LYS ILE GLY PRO GLU ARG THR CYS CYS LEU CYS ASP ARG SEQRES 17 D 523 ARG ALA THR CYS PHE SER THR ALA SER ASP THR TYR ALA SEQRES 18 D 523 CYS TRP HIS HIS SER ILE GLY PHE ASP TYR VAL TYR ASN SEQRES 19 D 523 PRO PHE MET ILE ASP VAL GLN GLN TRP GLY PHE THR GLY SEQRES 20 D 523 ASN LEU GLN SER ASN HIS ASP LEU TYR CYS GLN VAL HIS SEQRES 21 D 523 GLY ASN ALA HIS VAL ALA SER CYS ASP ALA ILE MET THR SEQRES 22 D 523 ARG CYS LEU ALA VAL HIS GLU CYS PHE VAL LYS ARG VAL SEQRES 23 D 523 ASP TRP THR ILE GLU TYR PRO ILE ILE GLY ASP GLU LEU SEQRES 24 D 523 LYS ILE ASN ALA ALA CYS ARG LYS VAL GLN HIS MET VAL SEQRES 25 D 523 VAL LYS ALA ALA LEU LEU ALA ASP LYS PHE PRO VAL LEU SEQRES 26 D 523 HIS ASP ILE GLY ASN PRO LYS ALA ILE LYS CYS VAL PRO SEQRES 27 D 523 GLN ALA ASP VAL GLU TRP LYS PHE TYR ASP ALA GLN PRO SEQRES 28 D 523 CYS SER ASP LYS ALA TYR LYS ILE GLU GLU LEU PHE TYR SEQRES 29 D 523 SER TYR ALA THR HIS SER ASP LYS PHE THR ASP GLY VAL SEQRES 30 D 523 CYS LEU PHE TRP ASN CYS ASN VAL ASP ARG TYR PRO ALA SEQRES 31 D 523 ASN SER ILE VAL CYS ARG PHE ASP THR ARG VAL LEU SER SEQRES 32 D 523 ASN LEU ASN LEU PRO GLY CYS ASP GLY GLY SER LEU TYR SEQRES 33 D 523 VAL ASN LYS HIS ALA PHE HIS THR PRO ALA PHE ASP LYS SEQRES 34 D 523 SER ALA PHE VAL ASN LEU LYS GLN LEU PRO PHE PHE TYR SEQRES 35 D 523 TYR SER ASP SER PRO CYS GLU SER HIS GLY LYS GLN VAL SEQRES 36 D 523 VAL SER ASP ILE ASP TYR VAL PRO LEU LYS SER ALA THR SEQRES 37 D 523 CYS ILE THR ARG CYS ASN LEU GLY GLY ALA VAL CYS ARG SEQRES 38 D 523 HIS HIS ALA ASN GLU TYR ARG LEU TYR LEU ASP ALA TYR SEQRES 39 D 523 ASN MET MET ILE SER ALA GLY PHE SER LEU TRP VAL TYR SEQRES 40 D 523 LYS GLN PHE ASP THR TYR ASN LEU TRP ASN THR PHE THR SEQRES 41 D 523 ARG LEU GLN HET ZN D 601 1 HET ZN D 602 1 HET ZN D 603 1 HET PO4 D 604 5 HET PO4 D 605 5 HET SZE D 606 15 HETNAM ZN ZINC ION HETNAM PO4 PHOSPHATE ION HETNAM SZE 4-(3-FLUORANYLPYRIDIN-2-YL)-1-METHYL-PIPERAZIN-2-ONE HETSYN SZE 4-(3-FLUOROPYRIDIN-2-YL)-1-METHYLPIPERAZIN-2-ONE FORMUL 2 ZN 3(ZN 2+) FORMUL 5 PO4 2(O4 P 3-) FORMUL 7 SZE C10 H12 F N3 O FORMUL 8 HOH *419(H2 O) HELIX 1 AA1 THR D 35 CYS D 39 5 5 HELIX 2 AA2 THR D 50 MET D 58 1 9 HELIX 3 AA3 THR D 75 HIS D 82 1 8 HELIX 4 AA4 TRP D 159 LYS D 175 1 17 HELIX 5 AA5 GLY D 189 MET D 195 1 7 HELIX 6 AA6 GLN D 245 GLY D 248 5 4 HELIX 7 AA7 ASN D 252 ASP D 258 1 7 HELIX 8 AA8 VAL D 269 VAL D 287 1 19 HELIX 9 AA9 ASP D 301 LYS D 325 1 25 HELIX 10 AB1 LYS D 362 PHE D 367 1 6 HELIX 11 AB2 ASP D 432 VAL D 437 5 6 HELIX 12 AB3 THR D 475 GLY D 480 1 6 HELIX 13 AB4 CYS D 484 ALA D 504 1 21 HELIX 14 AB5 ASP D 515 PHE D 523 5 9 SHEET 1 AA1 6 MET D 153 PRO D 158 0 SHEET 2 AA1 6 ASN D 116 VAL D 120 1 N VAL D 118 O LEU D 157 SHEET 3 AA1 6 LEU D 107 PHE D 111 -1 N LEU D 109 O LEU D 117 SHEET 4 AA1 6 TRP D 86 GLY D 93 -1 N ASP D 90 O GLY D 110 SHEET 5 AA1 6 VAL D 182 LEU D 185 1 O VAL D 182 N ILE D 87 SHEET 6 AA1 6 PHE D 240 ASP D 243 1 O ILE D 242 N LEU D 185 SHEET 1 AA2 4 VAL D 199 LYS D 200 0 SHEET 2 AA2 4 TYR D 235 TYR D 237 1 O VAL D 236 N LYS D 200 SHEET 3 AA2 4 CYS D 216 SER D 218 -1 N PHE D 217 O TYR D 235 SHEET 4 AA2 4 THR D 223 ALA D 225 -1 O THR D 223 N SER D 218 SHEET 1 AA3 6 GLU D 347 ASP D 352 0 SHEET 2 AA3 6 VAL D 328 GLY D 333 1 N ASP D 331 O LYS D 349 SHEET 3 AA3 6 VAL D 381 TRP D 385 1 O LEU D 383 N HIS D 330 SHEET 4 AA3 6 SER D 396 PHE D 401 1 O ILE D 397 N PHE D 384 SHEET 5 AA3 6 PHE D 506 TYR D 511 -1 O SER D 507 N ARG D 400 SHEET 6 AA3 6 LEU D 439 GLN D 441 -1 N LYS D 440 O VAL D 510 SHEET 1 AA4 3 ASN D 410 PRO D 412 0 SHEET 2 AA4 3 SER D 418 VAL D 421 -1 O LEU D 419 N LEU D 411 SHEET 3 AA4 3 ALA D 425 THR D 428 -1 O THR D 428 N SER D 418 SHEET 1 AA5 2 TYR D 446 TYR D 447 0 SHEET 2 AA5 2 CYS D 473 ILE D 474 1 O ILE D 474 N TYR D 446 LINK SG CYS D 207 ZN ZN D 603 1555 1555 2.23 LINK SG CYS D 210 ZN ZN D 603 1555 1555 2.32 LINK SG CYS D 226 ZN ZN D 603 1555 1555 2.44 LINK ND1 HIS D 229 ZN ZN D 603 1555 1555 1.91 LINK NE2 HIS D 257 ZN ZN D 601 1555 1555 2.14 LINK SG CYS D 261 ZN ZN D 601 1555 1555 2.27 LINK ND1 HIS D 264 ZN ZN D 601 1555 1555 1.99 LINK SG CYS D 279 ZN ZN D 601 1555 1555 2.33 LINK SG CYS D 452 ZN ZN D 602 1555 1555 2.40 LINK SG CYS D 477 ZN ZN D 602 1555 1555 2.50 LINK SG CYS D 484 ZN ZN D 602 1555 1555 2.35 LINK ND1 HIS D 487 ZN ZN D 602 1555 1555 2.25 CRYST1 67.508 67.258 138.892 90.00 90.00 90.00 P 21 21 21 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 0.014813 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014868 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007200 0.00000