HEADER VIRAL PROTEIN, HYDROLASE 10-OCT-20 7KEG TITLE CRYSTAL STRUCTURE FROM SARS-COV2 NENDOU NSP15 COMPND MOL_ID: 1; COMPND 2 MOLECULE: URIDYLATE-SPECIFIC ENDORIBONUCLEASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: NSP15, NENDOU; COMPND 5 EC: 3.1.-.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 3 2; SOURCE 4 ORGANISM_COMMON: 2019-NCOV, SARS-COV-2, COVID-19 VIRUS; SOURCE 5 ORGANISM_TAXID: 2697049; SOURCE 6 GENE: REP, 1A-1B; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NSP15, NENDOU, COVID-19, COVID, SARS, SARS-COV-2, ENDORIBONUCLEASE, KEYWDS 2 VIRAL PROTEIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.S.GODOY,A.M.NAKAMURA,H.M.PEREIRA,G.D.NOSKE,V.O.GAWRILJUK, AUTHOR 2 R.S.FERNANDES,K.I.Z.OLIVEIRA,G.OLIVA REVDAT 4 25-OCT-23 7KEG 1 REMARK REVDAT 3 19-JUL-23 7KEG 1 REMARK REVDAT 2 10-MAY-23 7KEG 1 JRNL REVDAT 1 02-DEC-20 7KEG 0 JRNL AUTH A.S.GODOY,A.M.NAKAMURA,A.DOUANGAMATH,Y.SONG,G.D.NOSKE, JRNL AUTH 2 V.O.GAWRILJUK,R.S.FERNANDES,H.D.M.PEREIRA,K.I.Z.OLIVEIRA, JRNL AUTH 3 D.FEARON,A.DIAS,T.KROJER,M.FAIRHEAD,A.POWELL,L.DUNNET, JRNL AUTH 4 J.BRANDAO-NETO,R.SKYNER,R.CHALK,D.BAJUSZ,M.BEGE,A.BORBAS, JRNL AUTH 5 G.M.KESERU,F.VON DELFT,G.OLIVA JRNL TITL ALLOSTERIC REGULATION AND CRYSTALLOGRAPHIC FRAGMENT JRNL TITL 2 SCREENING OF SARS-COV-2 NSP15 ENDORIBONUCLEASE. JRNL REF NUCLEIC ACIDS RES. 2023 JRNL REFN ESSN 1362-4962 JRNL PMID 37115000 JRNL DOI 10.1093/NAR/GKAD314 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.32 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 31370 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) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 1560 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.000 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 16 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.00 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.51 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2834 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2390 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2695 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE : 0.2580 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 139 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5500 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 357 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 57.94 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.42300 REMARK 3 B22 (A**2) : -0.42300 REMARK 3 B33 (A**2) : 0.84590 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) : 0.340 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.470 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.274 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.446 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.275 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 : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.883 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 5638 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 7652 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1956 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 160 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 798 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 5638 ; 20.000 ; 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 : 740 ; 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 : 6495 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.17 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.79 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 20.72 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 72.0629 -22.0015 -0.3673 REMARK 3 T TENSOR REMARK 3 T11: -0.0709 T22: -0.1896 REMARK 3 T33: -0.1134 T12: 0.0267 REMARK 3 T13: -0.0537 T23: 0.0210 REMARK 3 L TENSOR REMARK 3 L11: 1.4434 L22: 1.5715 REMARK 3 L33: 1.2418 L12: 0.3650 REMARK 3 L13: -0.5926 L23: -0.5699 REMARK 3 S TENSOR REMARK 3 S11: 0.0337 S12: 0.0841 S13: 0.2331 REMARK 3 S21: -0.1613 S22: 0.0090 S23: 0.0496 REMARK 3 S31: -0.0503 S32: -0.0771 S33: -0.0427 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 83.8750 23.3107 -8.1692 REMARK 3 T TENSOR REMARK 3 T11: -0.0408 T22: -0.1653 REMARK 3 T33: -0.2138 T12: -0.0471 REMARK 3 T13: -0.0120 T23: 0.0555 REMARK 3 L TENSOR REMARK 3 L11: 1.2446 L22: 1.6299 REMARK 3 L33: 1.3687 L12: 0.3426 REMARK 3 L13: 0.3611 L23: -0.3026 REMARK 3 S TENSOR REMARK 3 S11: 0.0639 S12: -0.2682 S13: -0.1742 REMARK 3 S21: 0.3428 S22: -0.0880 S23: -0.1414 REMARK 3 S31: -0.0525 S32: 0.0073 S33: 0.0241 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7KEG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-OCT-20. REMARK 100 THE DEPOSITION ID IS D_1000251895. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-SEP-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS SIRIUS REMARK 200 BEAMLINE : MANACA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.35502 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31377 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 49.320 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : 0.57200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 10.20 REMARK 200 R MERGE FOR SHELL (I) : 2.80600 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: 6X1B REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 8000, 0.1 M SODIUM/POTASSIUM REMARK 280 PHOSPHATE PH 6.2. CRYO-CONDITION BY ADDING 20% (V/V) ETHYLENE REMARK 280 GLYCOL, VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 55.14950 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 55.14950 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 55.14950 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 20060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 82980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -191.0 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 -0.500000 -0.866025 0.000000 75.34150 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -130.49531 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 150.68300 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 150.68300 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 55.14950 REMARK 350 BIOMT1 5 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 55.14950 REMARK 350 BIOMT1 6 0.500000 -0.866025 0.000000 75.34150 REMARK 350 BIOMT2 6 0.866025 0.500000 0.000000 -130.49531 REMARK 350 BIOMT3 6 0.000000 0.000000 1.000000 55.14950 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 -2 REMARK 465 GLY B -2 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 28 74.70 23.93 REMARK 500 ASN A 28 -114.96 69.96 REMARK 500 VAL A 101 -57.39 -124.82 REMARK 500 GLU A 202 42.37 -100.49 REMARK 500 VAL A 236 -60.97 -90.82 REMARK 500 LEU A 248 64.46 61.05 REMARK 500 PRO A 270 93.50 -69.38 REMARK 500 ASN B 28 74.20 23.64 REMARK 500 ASN B 28 -102.77 64.76 REMARK 500 VAL B 101 -56.81 -123.56 REMARK 500 VAL B 236 -62.64 -90.27 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 677 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH A 678 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH A 679 DISTANCE = 7.08 ANGSTROMS REMARK 525 HOH A 680 DISTANCE = 7.17 ANGSTROMS REMARK 525 HOH A 681 DISTANCE = 7.28 ANGSTROMS REMARK 525 HOH A 682 DISTANCE = 7.42 ANGSTROMS REMARK 525 HOH A 683 DISTANCE = 7.67 ANGSTROMS REMARK 525 HOH A 684 DISTANCE = 7.86 ANGSTROMS REMARK 525 HOH A 685 DISTANCE = 9.97 ANGSTROMS REMARK 525 HOH B 660 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH B 661 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH B 662 DISTANCE = 6.38 ANGSTROMS REMARK 525 HOH B 663 DISTANCE = 6.56 ANGSTROMS REMARK 525 HOH B 664 DISTANCE = 6.72 ANGSTROMS REMARK 525 HOH B 665 DISTANCE = 6.86 ANGSTROMS REMARK 525 HOH B 666 DISTANCE = 7.00 ANGSTROMS REMARK 525 HOH B 667 DISTANCE = 7.49 ANGSTROMS REMARK 525 HOH B 668 DISTANCE = 7.64 ANGSTROMS REMARK 525 HOH B 669 DISTANCE = 8.28 ANGSTROMS REMARK 525 HOH B 670 DISTANCE = 9.46 ANGSTROMS REMARK 525 HOH B 671 DISTANCE = 9.71 ANGSTROMS REMARK 525 HOH B 672 DISTANCE = 9.98 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 401 DBREF 7KEG A 1 346 UNP P0DTD1 R1AB_SARS2 6453 6798 DBREF 7KEG B 1 346 UNP P0DTD1 R1AB_SARS2 6453 6798 SEQADV 7KEG GLY A -2 UNP P0DTD1 EXPRESSION TAG SEQADV 7KEG ALA A -1 UNP P0DTD1 EXPRESSION TAG SEQADV 7KEG MET A 0 UNP P0DTD1 EXPRESSION TAG SEQADV 7KEG GLY B -2 UNP P0DTD1 EXPRESSION TAG SEQADV 7KEG ALA B -1 UNP P0DTD1 EXPRESSION TAG SEQADV 7KEG MET B 0 UNP P0DTD1 EXPRESSION TAG SEQRES 1 A 349 GLY ALA MET SER LEU GLU ASN VAL ALA PHE ASN VAL VAL SEQRES 2 A 349 ASN LYS GLY HIS PHE ASP GLY GLN GLN GLY GLU VAL PRO SEQRES 3 A 349 VAL SER ILE ILE ASN ASN THR VAL TYR THR LYS VAL ASP SEQRES 4 A 349 GLY VAL ASP VAL GLU LEU PHE GLU ASN LYS THR THR LEU SEQRES 5 A 349 PRO VAL ASN VAL ALA PHE GLU LEU TRP ALA LYS ARG ASN SEQRES 6 A 349 ILE LYS PRO VAL PRO GLU VAL LYS ILE LEU ASN ASN LEU SEQRES 7 A 349 GLY VAL ASP ILE ALA ALA ASN THR VAL ILE TRP ASP TYR SEQRES 8 A 349 LYS ARG ASP ALA PRO ALA HIS ILE SER THR ILE GLY VAL SEQRES 9 A 349 CYS SER MET THR ASP ILE ALA LYS LYS PRO THR GLU THR SEQRES 10 A 349 ILE CYS ALA PRO LEU THR VAL PHE PHE ASP GLY ARG VAL SEQRES 11 A 349 ASP GLY GLN VAL ASP LEU PHE ARG ASN ALA ARG ASN GLY SEQRES 12 A 349 VAL LEU ILE THR GLU GLY SER VAL LYS GLY LEU GLN PRO SEQRES 13 A 349 SER VAL GLY PRO LYS GLN ALA SER LEU ASN GLY VAL THR SEQRES 14 A 349 LEU ILE GLY GLU ALA VAL LYS THR GLN PHE ASN TYR TYR SEQRES 15 A 349 LYS LYS VAL ASP GLY VAL VAL GLN GLN LEU PRO GLU THR SEQRES 16 A 349 TYR PHE THR GLN SER ARG ASN LEU GLN GLU PHE LYS PRO SEQRES 17 A 349 ARG SER GLN MET GLU ILE ASP PHE LEU GLU LEU ALA MET SEQRES 18 A 349 ASP GLU PHE ILE GLU ARG TYR LYS LEU GLU GLY TYR ALA SEQRES 19 A 349 PHE GLU HIS ILE VAL TYR GLY ASP PHE SER HIS SER GLN SEQRES 20 A 349 LEU GLY GLY LEU HIS LEU LEU ILE GLY LEU ALA LYS ARG SEQRES 21 A 349 PHE LYS GLU SER PRO PHE GLU LEU GLU ASP PHE ILE PRO SEQRES 22 A 349 MET ASP SER THR VAL LYS ASN TYR PHE ILE THR ASP ALA SEQRES 23 A 349 GLN THR GLY SER SER LYS CYS VAL CYS SER VAL ILE ASP SEQRES 24 A 349 LEU LEU LEU ASP ASP PHE VAL GLU ILE ILE LYS SER GLN SEQRES 25 A 349 ASP LEU SER VAL VAL SER LYS VAL VAL LYS VAL THR ILE SEQRES 26 A 349 ASP TYR THR GLU ILE SER PHE MET LEU TRP CYS LYS ASP SEQRES 27 A 349 GLY HIS VAL GLU THR PHE TYR PRO LYS LEU GLN SEQRES 1 B 349 GLY ALA MET SER LEU GLU ASN VAL ALA PHE ASN VAL VAL SEQRES 2 B 349 ASN LYS GLY HIS PHE ASP GLY GLN GLN GLY GLU VAL PRO SEQRES 3 B 349 VAL SER ILE ILE ASN ASN THR VAL TYR THR LYS VAL ASP SEQRES 4 B 349 GLY VAL ASP VAL GLU LEU PHE GLU ASN LYS THR THR LEU SEQRES 5 B 349 PRO VAL ASN VAL ALA PHE GLU LEU TRP ALA LYS ARG ASN SEQRES 6 B 349 ILE LYS PRO VAL PRO GLU VAL LYS ILE LEU ASN ASN LEU SEQRES 7 B 349 GLY VAL ASP ILE ALA ALA ASN THR VAL ILE TRP ASP TYR SEQRES 8 B 349 LYS ARG ASP ALA PRO ALA HIS ILE SER THR ILE GLY VAL SEQRES 9 B 349 CYS SER MET THR ASP ILE ALA LYS LYS PRO THR GLU THR SEQRES 10 B 349 ILE CYS ALA PRO LEU THR VAL PHE PHE ASP GLY ARG VAL SEQRES 11 B 349 ASP GLY GLN VAL ASP LEU PHE ARG ASN ALA ARG ASN GLY SEQRES 12 B 349 VAL LEU ILE THR GLU GLY SER VAL LYS GLY LEU GLN PRO SEQRES 13 B 349 SER VAL GLY PRO LYS GLN ALA SER LEU ASN GLY VAL THR SEQRES 14 B 349 LEU ILE GLY GLU ALA VAL LYS THR GLN PHE ASN TYR TYR SEQRES 15 B 349 LYS LYS VAL ASP GLY VAL VAL GLN GLN LEU PRO GLU THR SEQRES 16 B 349 TYR PHE THR GLN SER ARG ASN LEU GLN GLU PHE LYS PRO SEQRES 17 B 349 ARG SER GLN MET GLU ILE ASP PHE LEU GLU LEU ALA MET SEQRES 18 B 349 ASP GLU PHE ILE GLU ARG TYR LYS LEU GLU GLY TYR ALA SEQRES 19 B 349 PHE GLU HIS ILE VAL TYR GLY ASP PHE SER HIS SER GLN SEQRES 20 B 349 LEU GLY GLY LEU HIS LEU LEU ILE GLY LEU ALA LYS ARG SEQRES 21 B 349 PHE LYS GLU SER PRO PHE GLU LEU GLU ASP PHE ILE PRO SEQRES 22 B 349 MET ASP SER THR VAL LYS ASN TYR PHE ILE THR ASP ALA SEQRES 23 B 349 GLN THR GLY SER SER LYS CYS VAL CYS SER VAL ILE ASP SEQRES 24 B 349 LEU LEU LEU ASP ASP PHE VAL GLU ILE ILE LYS SER GLN SEQRES 25 B 349 ASP LEU SER VAL VAL SER LYS VAL VAL LYS VAL THR ILE SEQRES 26 B 349 ASP TYR THR GLU ILE SER PHE MET LEU TRP CYS LYS ASP SEQRES 27 B 349 GLY HIS VAL GLU THR PHE TYR PRO LYS LEU GLN HET PO4 A 401 5 HET PO4 B 401 5 HETNAM PO4 PHOSPHATE ION FORMUL 3 PO4 2(O4 P 3-) FORMUL 5 HOH *357(H2 O) HELIX 1 AA1 SER A 1 GLY A 13 1 13 HELIX 2 AA2 PRO A 50 LYS A 60 1 11 HELIX 3 AA3 GLU A 68 LEU A 75 1 8 HELIX 4 AA4 GLU A 113 ALA A 117 5 5 HELIX 5 AA5 GLY A 129 ALA A 137 1 9 HELIX 6 AA6 SER A 207 LEU A 216 1 10 HELIX 7 AA7 ALA A 217 TYR A 225 1 9 HELIX 8 AA8 ALA A 231 VAL A 236 1 6 HELIX 9 AA9 LEU A 250 SER A 261 1 12 HELIX 10 AB1 LEU A 298 SER A 308 1 11 HELIX 11 AB2 SER B 1 GLY B 13 1 13 HELIX 12 AB3 PRO B 50 LYS B 60 1 11 HELIX 13 AB4 GLU B 68 LEU B 75 1 8 HELIX 14 AB5 GLU B 113 ALA B 117 5 5 HELIX 15 AB6 GLY B 129 ALA B 137 1 9 HELIX 16 AB7 SER B 207 LEU B 216 1 10 HELIX 17 AB8 ALA B 217 TYR B 225 1 9 HELIX 18 AB9 ALA B 231 VAL B 236 1 6 HELIX 19 AC1 LEU B 250 SER B 261 1 12 HELIX 20 AC2 LEU B 298 SER B 308 1 11 SHEET 1 AA1 3 VAL A 24 ILE A 27 0 SHEET 2 AA1 3 THR A 30 VAL A 35 -1 O TYR A 32 N SER A 25 SHEET 3 AA1 3 VAL A 38 GLU A 44 -1 O LEU A 42 N VAL A 31 SHEET 1 AA2 5 ILE A 79 ALA A 80 0 SHEET 2 AA2 5 VAL A 121 ASP A 124 1 O PHE A 122 N ILE A 79 SHEET 3 AA2 5 GLY A 140 THR A 144 1 O VAL A 141 N PHE A 123 SHEET 4 AA2 5 ASN A 177 VAL A 182 -1 O TYR A 179 N LEU A 142 SHEET 5 AA2 5 SER A 154 VAL A 155 -1 N SER A 154 O TYR A 178 SHEET 1 AA3 5 ILE A 79 ALA A 80 0 SHEET 2 AA3 5 VAL A 121 ASP A 124 1 O PHE A 122 N ILE A 79 SHEET 3 AA3 5 GLY A 140 THR A 144 1 O VAL A 141 N PHE A 123 SHEET 4 AA3 5 ASN A 177 VAL A 182 -1 O TYR A 179 N LEU A 142 SHEET 5 AA3 5 VAL A 185 GLN A 187 -1 O GLN A 187 N LYS A 180 SHEET 1 AA4 2 TRP A 86 ASP A 87 0 SHEET 2 AA4 2 ALA A 92 PRO A 93 -1 O ALA A 92 N ASP A 87 SHEET 1 AA5 2 THR A 98 ILE A 99 0 SHEET 2 AA5 2 ASP A 106 ALA A 108 1 O ILE A 107 N THR A 98 SHEET 1 AA6 2 ALA A 160 LEU A 162 0 SHEET 2 AA6 2 VAL A 165 LEU A 167 -1 O VAL A 165 N LEU A 162 SHEET 1 AA7 2 GLY A 238 ASP A 239 0 SHEET 2 AA7 2 GLY A 246 GLY A 247 -1 O GLY A 246 N ASP A 239 SHEET 1 AA8 3 PHE A 263 GLU A 266 0 SHEET 2 AA8 3 LYS A 276 ASP A 282 -1 O THR A 281 N GLU A 264 SHEET 3 AA8 3 SER A 288 VAL A 294 -1 O VAL A 294 N LYS A 276 SHEET 1 AA9 3 SER A 315 ILE A 322 0 SHEET 2 AA9 3 THR A 325 LYS A 334 -1 O PHE A 329 N VAL A 318 SHEET 3 AA9 3 HIS A 337 PRO A 343 -1 O GLU A 339 N TRP A 332 SHEET 1 AB1 3 VAL B 24 ILE B 27 0 SHEET 2 AB1 3 THR B 30 VAL B 35 -1 O TYR B 32 N SER B 25 SHEET 3 AB1 3 VAL B 38 GLU B 44 -1 O LEU B 42 N VAL B 31 SHEET 1 AB2 5 ILE B 79 ALA B 80 0 SHEET 2 AB2 5 VAL B 121 ASP B 124 1 O PHE B 122 N ILE B 79 SHEET 3 AB2 5 GLY B 140 THR B 144 1 O VAL B 141 N PHE B 123 SHEET 4 AB2 5 ASN B 177 VAL B 182 -1 O TYR B 179 N LEU B 142 SHEET 5 AB2 5 SER B 154 VAL B 155 -1 N SER B 154 O TYR B 178 SHEET 1 AB3 5 ILE B 79 ALA B 80 0 SHEET 2 AB3 5 VAL B 121 ASP B 124 1 O PHE B 122 N ILE B 79 SHEET 3 AB3 5 GLY B 140 THR B 144 1 O VAL B 141 N PHE B 123 SHEET 4 AB3 5 ASN B 177 VAL B 182 -1 O TYR B 179 N LEU B 142 SHEET 5 AB3 5 VAL B 185 GLN B 187 -1 O GLN B 187 N LYS B 180 SHEET 1 AB4 2 TRP B 86 ASP B 87 0 SHEET 2 AB4 2 ALA B 92 PRO B 93 -1 O ALA B 92 N ASP B 87 SHEET 1 AB5 2 THR B 98 ILE B 99 0 SHEET 2 AB5 2 ASP B 106 ALA B 108 1 O ILE B 107 N THR B 98 SHEET 1 AB6 2 ALA B 160 LEU B 162 0 SHEET 2 AB6 2 VAL B 165 LEU B 167 -1 O VAL B 165 N LEU B 162 SHEET 1 AB7 3 PHE B 263 GLU B 266 0 SHEET 2 AB7 3 VAL B 275 ASP B 282 -1 O PHE B 279 N GLU B 266 SHEET 3 AB7 3 SER B 288 ILE B 295 -1 O VAL B 294 N LYS B 276 SHEET 1 AB8 3 SER B 315 ILE B 322 0 SHEET 2 AB8 3 THR B 325 LYS B 334 -1 O PHE B 329 N VAL B 318 SHEET 3 AB8 3 HIS B 337 PRO B 343 -1 O GLU B 339 N TRP B 332 SITE 1 AC1 8 HIS A 234 GLY A 246 GLY A 247 HIS A 249 SITE 2 AC1 8 LYS A 289 THR A 340 HOH A 511 HOH A 541 SITE 1 AC2 7 HIS B 234 GLY B 246 GLY B 247 HIS B 249 SITE 2 AC2 7 LYS B 289 THR B 340 TYR B 342 CRYST1 150.683 150.683 110.299 90.00 90.00 120.00 P 63 12 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 0.006636 0.003832 0.000000 0.00000 SCALE2 0.000000 0.007663 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009066 0.00000