HEADER TRANSFERASE/VIRAL PROTEIN 18-NOV-10 2XYQ TITLE CRYSTAL STRUCTURE OF THE NSP16 NSP10 SARS CORONAVIRUS COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE 2'-O-METHYL TRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 6776-7065; COMPND 5 SYNONYM: NON STRUCTURAL PROTEIN 16; COMPND 6 EC: 2.1.1.-; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: NON-STRUCTURAL PROTEIN 10; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: RESIDUES 4240-4361; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SARS CORONAVIRUS; SOURCE 3 ORGANISM_TAXID: 227859; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_VARIANT: C41; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: SARS CORONAVIRUS; SOURCE 9 ORGANISM_TAXID: 227859; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 12 EXPRESSION_SYSTEM_VARIANT: C41 KEYWDS TRANSFERASE-VIRAL PROTEIN COMPLEX, ROSSMANN FOLD EXPDTA X-RAY DIFFRACTION AUTHOR E.DECROLY,C.DEBARNOT,F.FERRON,M.BOUVET,B.COUTARD,I.IMBERT,L.GLUAIS, AUTHOR 2 N.PAPAGEORGIOU,M.ORTIZ-LOMBARDIA,J.LESCAR,B.CANARD REVDAT 4 20-DEC-23 2XYQ 1 REMARK LINK REVDAT 3 24-JAN-18 2XYQ 1 SOURCE REVDAT 2 12-NOV-14 2XYQ 1 KEYWDS REMARK LINK SITE REVDAT 2 2 1 HETATM CONECT MASTER REVDAT 1 19-OCT-11 2XYQ 0 JRNL AUTH E.DECROLY,C.DEBARNOT,F.FERRON,M.BOUVET,B.COUTARD,I.IMBERT, JRNL AUTH 2 L.GLUAIS,N.PAPAGEORGIOU,A.SHARFF,G.BRICOGNE, JRNL AUTH 3 M.ORTIZ-LOMBARDIA,J.LESCAR,B.CANARD JRNL TITL CRYSTAL STRUCTURE AND FUNCTIONAL ANALYSIS OF THE JRNL TITL 2 SARS-CORONAVIRUS RNA CAP 2'-O-METHYLTRANSFERASE NSP10/NSP16 JRNL TITL 3 COMPLEX. JRNL REF PLOS PATHOG. V. 7 2059 2011 JRNL REFN ISSN 1553-7366 JRNL PMID 21637813 JRNL DOI 10.1371/JOURNAL.PPAT.1002059 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.24 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 51990 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) : 0.214 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2776 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3837 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.75 REMARK 3 BIN R VALUE (WORKING SET) : 0.2830 REMARK 3 BIN FREE R VALUE SET COUNT : 210 REMARK 3 BIN FREE R VALUE : 0.2900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3151 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 298 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.00000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.133 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.120 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.087 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.113 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3294 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4480 ; 1.015 ; 1.956 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 418 ; 4.979 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 139 ;36.698 ;24.748 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 545 ;12.833 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;15.958 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 499 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2487 ; 0.003 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2055 ; 0.538 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3310 ; 1.014 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1239 ; 1.187 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1165 ; 1.985 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 2XYQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-NOV-10. REMARK 100 THE DEPOSITION ID IS D_1290046313. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : KIRKPATRICK-BAEZ PAIR OF BI REMARK 200 -MORPH MIRRORS PLUS CHANNEL CUT REMARK 200 CRYOGENICALLY COOLED REMARK 200 MONOCHROMATOR CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54947 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 37.520 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.43000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.700 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: PDB ENTRY 2FYG REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M CHES, 1.52M MGCL2, PH 9 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 64.41350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.41350 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 34.03500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 92.30800 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 34.03500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 92.30800 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 64.41350 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 34.03500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 92.30800 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 64.41350 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 34.03500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 92.30800 REMARK 290 SMTRY3 8 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.5 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 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 THR A 136 REMARK 465 LYS A 137 REMARK 465 HIS A 138 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 TYR A 30 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 135 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 139 CG1 CG2 REMARK 470 THR A 140 OG1 CG2 REMARK 470 LYS A 141 CG CD CE NZ 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 141 -96.37 -137.60 REMARK 500 ASN A 143 76.85 -114.72 REMARK 500 GLU A 147 -117.19 -99.12 REMARK 500 ASN A 210 86.37 67.52 REMARK 500 ASN A 268 -163.99 -103.30 REMARK 500 SER B 11 85.80 93.28 REMARK 500 SER B 11 80.29 94.92 REMARK 500 THR B 12 -56.80 80.84 REMARK 500 THR B 12 -56.80 88.87 REMARK 500 PRO B 86 -70.55 -25.59 REMARK 500 LYS B 87 -100.30 -78.37 REMARK 500 TYR B 126 -85.99 -133.40 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 A2060 DISTANCE = 6.49 ANGSTROMS REMARK 525 HOH A3004 DISTANCE = 7.03 ANGSTROMS REMARK 525 HOH B2048 DISTANCE = 6.10 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 NA A1295 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 164 O REMARK 620 2 SER A 166 OG 102.4 REMARK 620 3 HOH A2074 O 121.1 108.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1294 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 220 OD2 REMARK 620 2 HOH A2174 O 84.7 REMARK 620 3 HOH A2175 O 72.9 76.5 REMARK 620 4 HOH A2176 O 65.1 135.0 63.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1296 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2073 O REMARK 620 2 HOH A2157 O 94.3 REMARK 620 3 HOH A2212 O 85.5 88.8 REMARK 620 4 HOH A3001 O 162.0 91.0 77.4 REMARK 620 5 HOH A3002 O 100.2 111.5 158.2 93.8 REMARK 620 6 HOH A3003 O 83.1 165.4 76.7 87.5 83.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1132 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 74 SG REMARK 620 2 CYS B 77 SG 115.7 REMARK 620 3 HIS B 83 NE2 105.0 108.9 REMARK 620 4 CYS B 90 SG 110.4 113.3 102.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1133 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 117 SG REMARK 620 2 CYS B 120 SG 102.5 REMARK 620 3 CYS B 128 SG 117.5 111.3 REMARK 620 4 CYS B 130 SG 112.6 108.5 104.4 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1291 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1292 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH A 1293 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1294 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1295 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1296 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1132 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1133 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2AHM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS-COV SUPER COMPLEX OF NON- STRUCTURAL REMARK 900 PROTEINS: THE HEXADECAMER REMARK 900 RELATED ID: 2D2D RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS-COV MPRO IN COMPLEX WITH ANINHIBITOR I2 REMARK 900 RELATED ID: 1P9T RELATED DB: PDB REMARK 900 CORONAVIRUS MAIN PROTEINASE (3CLPRO) STRUCTURE: BASIS FORDESIGN OF REMARK 900 ANTI-SARS DRUGS REMARK 900 RELATED ID: 2XYV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE NSP16 NSP10 SARS CORONAVIRUS COMPLEX REMARK 900 RELATED ID: 1UK3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS CORONAVIRUS MAIN PROTEINASE( 3CLPRO) AT REMARK 900 PH7.6 REMARK 900 RELATED ID: 2XYR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE NSP16 NSP10 SARS CORONAVIRUS COMPLEX REMARK 900 RELATED ID: 1WOF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS-COV MPRO IN COMPLEX WITH ANINHIBITOR N1 REMARK 900 RELATED ID: 2AMD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS_COV MPRO IN COMPLEX WITH ANINHIBITOR N9 REMARK 900 RELATED ID: 2A5I RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF SARS CORONAVIRUS MAIN PEPTIDASEINHIBITED BY REMARK 900 AN AZA-PEPTIDE EPOXIDE IN THE SPACE GROUP C2 REMARK 900 RELATED ID: 2V6N RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF THE SARS-CORONAVIRUS MAIN PROTEINASE REMARK 900 INACTIVATED BY BENZOTRIAZOLE COMPOUNDS REMARK 900 RELATED ID: 2BX4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS CORONAVIRUS MAIN PROTEINASE ( P21212) REMARK 900 RELATED ID: 2ACF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ADRP DOMAIN OF SARS NSP3 REMARK 900 RELATED ID: 1UK4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS CORONAVIRUS MAIN PROTEINASE( 3CLPRO) REMARK 900 COMPLEXED WITH AN INHIBITOR REMARK 900 RELATED ID: 1Z1I RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF NATIVE SARS CLPRO REMARK 900 RELATED ID: 1O5S RELATED DB: PDB REMARK 900 STRUCTURE MODEL OF THE CATALYTIC DOMAIN OF SARS- REMARK 900 CORONAVIRUSPOLYMERASE REMARK 900 RELATED ID: 2A5K RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF SARS CORONAVIRUS MAIN PEPTIDASEINHIBITED BY REMARK 900 AN AZA-PEPTIDE EPOXIDE IN SPACE GROUP P212121 REMARK 900 RELATED ID: 2C3S RELATED DB: PDB REMARK 900 STRUCTURE OF SARS COV MAIN PROTEINASE AT 1.9 A ( PH6.5) REMARK 900 RELATED ID: 1SXF RELATED DB: PDB REMARK 900 HOMOLOGY MODEL FOR HUMAN SARS-CORONAVIRUS RNA-DEPENDENT REMARK 900 RNAPOLYMERASE REMARK 900 RELATED ID: 1UJ1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS CORONAVIRUS MAIN PROTEINASE( 3CLPRO) REMARK 900 RELATED ID: 1UK2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS CORONAVIRUS MAIN PROTEINASE( 3CLPRO) AT REMARK 900 PH8.0 REMARK 900 RELATED ID: 2AMQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS_COV MPRO IN COMPLEX WITH ANINHIBITOR N3 REMARK 900 RELATED ID: 2BX3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS CORONAVIRUS MAIN PROTEINASE ( P43212) REMARK 900 RELATED ID: 1PA5 RELATED DB: PDB REMARK 900 STRUCTURE OF SARS CORONAVIRUS PROTEINASE REMARK 900 RELATED ID: 1PUK RELATED DB: PDB REMARK 900 3C-LIKE PROTEINASE DOMAIN STRUCTURE OF HUMAN CORONAVIRUS (STRAIN REMARK 900 SARS) MODELED IN-SILICO REMARK 900 RELATED ID: 1UW7 RELATED DB: PDB REMARK 900 NSP9 REPLICASE PROTEIN FROM SARS-CORONAVIRUS. REMARK 900 RELATED ID: 1P76 RELATED DB: PDB REMARK 900 3D STRUCTURE OF THE SUBSTRATE-BOUND SARS CHYMOTRYPSIN- LIKECYSTEINE REMARK 900 PROTEINASE REMARK 900 RELATED ID: 1Q1X RELATED DB: PDB REMARK 900 CORONAVIRUS MAIN PROTEINASE (3CLPRO) STRUCTURE: BASIS FORDESIGN OF REMARK 900 ANTI-SARS LIGANDS REMARK 900 RELATED ID: 2A5A RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF UNBOUND SARS CORONAVIRUS MAINPEPTIDASE IN THE REMARK 900 SPACE GROUP C2 REMARK 900 RELATED ID: 1YSY RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE NONSTRUCTURAL PROTEIN 7 (NSP7) FROMTHE SARS REMARK 900 CORONAVIRUS REMARK 900 RELATED ID: 1Z1J RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SARS 3CLPRO C145A MUTANT DBREF 2XYQ A 1 290 UNP P0C6X7 R1AB_CVHSA 6776 7065 DBREF 2XYQ B 10 131 UNP P0C6X7 R1AB_CVHSA 4240 4361 SEQRES 1 A 290 ALA SER GLN ALA TRP GLN PRO GLY VAL ALA MET PRO ASN SEQRES 2 A 290 LEU TYR LYS MET GLN ARG MET LEU LEU GLU LYS CYS ASP SEQRES 3 A 290 LEU GLN ASN TYR GLY GLU ASN ALA VAL ILE PRO LYS GLY SEQRES 4 A 290 ILE MET MET ASN VAL ALA LYS TYR THR GLN LEU CYS GLN SEQRES 5 A 290 TYR LEU ASN THR LEU THR LEU ALA VAL PRO TYR ASN MET SEQRES 6 A 290 ARG VAL ILE HIS PHE GLY ALA GLY SER ASP LYS GLY VAL SEQRES 7 A 290 ALA PRO GLY THR ALA VAL LEU ARG GLN TRP LEU PRO THR SEQRES 8 A 290 GLY THR LEU LEU VAL ASP SER ASP LEU ASN ASP PHE VAL SEQRES 9 A 290 SER ASP ALA ASP SER THR LEU ILE GLY ASP CYS ALA THR SEQRES 10 A 290 VAL HIS THR ALA ASN LYS TRP ASP LEU ILE ILE SER ASP SEQRES 11 A 290 MET TYR ASP PRO ARG THR LYS HIS VAL THR LYS GLU ASN SEQRES 12 A 290 ASP SER LYS GLU GLY PHE PHE THR TYR LEU CYS GLY PHE SEQRES 13 A 290 ILE LYS GLN LYS LEU ALA LEU GLY GLY SER ILE ALA VAL SEQRES 14 A 290 LYS ILE THR GLU HIS SER TRP ASN ALA ASP LEU TYR LYS SEQRES 15 A 290 LEU MET GLY HIS PHE SER TRP TRP THR ALA PHE VAL THR SEQRES 16 A 290 ASN VAL ASN ALA SER SER SER GLU ALA PHE LEU ILE GLY SEQRES 17 A 290 ALA ASN TYR LEU GLY LYS PRO LYS GLU GLN ILE ASP GLY SEQRES 18 A 290 TYR THR MET HIS ALA ASN TYR ILE PHE TRP ARG ASN THR SEQRES 19 A 290 ASN PRO ILE GLN LEU SER SER TYR SER LEU PHE ASP MET SEQRES 20 A 290 SER LYS PHE PRO LEU LYS LEU ARG GLY THR ALA VAL MET SEQRES 21 A 290 SER LEU LYS GLU ASN GLN ILE ASN ASP MET ILE TYR SER SEQRES 22 A 290 LEU LEU GLU LYS GLY ARG LEU ILE ILE ARG GLU ASN ASN SEQRES 23 A 290 ARG VAL VAL VAL SEQRES 1 B 122 ASN SER THR VAL LEU SER PHE CYS ALA PHE ALA VAL ASP SEQRES 2 B 122 PRO ALA LYS ALA TYR LYS ASP TYR LEU ALA SER GLY GLY SEQRES 3 B 122 GLN PRO ILE THR ASN CYS VAL LYS MET LEU CYS THR HIS SEQRES 4 B 122 THR GLY THR GLY GLN ALA ILE THR VAL THR PRO GLU ALA SEQRES 5 B 122 ASN MET ASP GLN GLU SER PHE GLY GLY ALA SER CYS CYS SEQRES 6 B 122 LEU TYR CYS ARG CYS HIS ILE ASP HIS PRO ASN PRO LYS SEQRES 7 B 122 GLY PHE CYS ASP LEU LYS GLY LYS TYR VAL GLN ILE PRO SEQRES 8 B 122 THR THR CYS ALA ASN ASP PRO VAL GLY PHE THR LEU ARG SEQRES 9 B 122 ASN THR VAL CYS THR VAL CYS GLY MET TRP LYS GLY TYR SEQRES 10 B 122 GLY CYS SER CYS ASP HET CL A1291 1 HET CL A1292 1 HET SAH A1293 26 HET NA A1294 1 HET NA A1295 1 HET MG A1296 1 HET ZN B1132 1 HET ZN B1133 1 HETNAM CL CHLORIDE ION HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM NA SODIUM ION HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION FORMUL 3 CL 2(CL 1-) FORMUL 5 SAH C14 H20 N6 O5 S FORMUL 6 NA 2(NA 1+) FORMUL 8 MG MG 2+ FORMUL 9 ZN 2(ZN 2+) FORMUL 11 HOH *298(H2 O) HELIX 1 1 ALA A 1 GLN A 6 1 6 HELIX 2 2 PRO A 12 MET A 17 1 6 HELIX 3 3 MET A 41 ASN A 55 1 15 HELIX 4 4 ALA A 79 LEU A 89 1 11 HELIX 5 5 ASP A 114 VAL A 118 5 5 HELIX 6 6 GLY A 148 LYS A 160 1 13 HELIX 7 7 ASN A 177 GLY A 185 1 9 HELIX 8 8 VAL A 197 ALA A 199 5 3 HELIX 9 9 ASP A 220 ASN A 235 1 16 HELIX 10 10 SER A 241 ASP A 246 5 6 HELIX 11 11 LYS A 263 ILE A 267 5 5 HELIX 12 12 ASN A 268 LYS A 277 1 10 HELIX 13 13 THR B 12 PHE B 19 1 8 HELIX 14 14 ASP B 22 SER B 33 1 12 HELIX 15 15 ALA B 71 CYS B 73 5 3 HELIX 16 16 CYS B 74 CYS B 79 1 6 HELIX 17 17 THR B 102 ALA B 104 5 3 HELIX 18 18 ASP B 106 ASN B 114 1 9 SHEET 1 AA 8 GLY A 8 ALA A 10 0 SHEET 2 AA 8 PHE A 187 THR A 195 -1 O VAL A 194 N VAL A 9 SHEET 3 AA 8 ALA A 204 TYR A 211 -1 O PHE A 205 N PHE A 193 SHEET 4 AA 8 LEU A 161 ILE A 171 -1 N GLY A 164 O TYR A 211 SHEET 5 AA 8 TRP A 124 SER A 129 1 O TRP A 124 N ALA A 162 SHEET 6 AA 8 ARG A 66 PHE A 70 1 O ARG A 66 N ASP A 125 SHEET 7 AA 8 LEU A 94 ASP A 99 1 O LEU A 94 N VAL A 67 SHEET 8 AA 8 SER A 109 ILE A 112 1 O SER A 109 N ASP A 97 SHEET 1 AB 2 ALA A 258 MET A 260 0 SHEET 2 AB 2 LEU A 280 ILE A 282 1 O ILE A 281 N MET A 260 SHEET 1 BA 3 ILE B 55 THR B 56 0 SHEET 2 BA 3 TYR B 96 PRO B 100 -1 O TYR B 96 N THR B 56 SHEET 3 BA 3 GLN B 65 GLY B 69 -1 O GLU B 66 N ILE B 99 LINK O GLY A 164 NA NA A1295 1555 1555 2.74 LINK OG SER A 166 NA NA A1295 1555 1555 2.72 LINK OD2 ASP A 220 NA NA A1294 1555 1555 2.51 LINK NA NA A1294 O HOH A2174 1555 1555 2.22 LINK NA NA A1294 O HOH A2175 1555 1555 2.60 LINK NA NA A1294 O HOH A2176 1555 1555 2.38 LINK NA NA A1295 O HOH A2074 1555 1555 2.61 LINK MG MG A1296 O HOH A2073 1555 1555 1.99 LINK MG MG A1296 O HOH A2157 1555 1555 2.01 LINK MG MG A1296 O HOH A2212 1555 1555 2.17 LINK MG MG A1296 O HOH A3001 1555 1555 2.14 LINK MG MG A1296 O HOH A3002 1555 1555 2.02 LINK MG MG A1296 O HOH A3003 1555 1555 2.27 LINK SG CYS B 74 ZN ZN B1132 1555 1555 2.31 LINK SG CYS B 77 ZN ZN B1132 1555 1555 2.30 LINK NE2 HIS B 83 ZN ZN B1132 1555 1555 2.13 LINK SG CYS B 90 ZN ZN B1132 1555 1555 2.40 LINK SG CYS B 117 ZN ZN B1133 1555 1555 2.28 LINK SG CYS B 120 ZN ZN B1133 1555 1555 2.43 LINK SG CYS B 128 ZN ZN B1133 1555 1555 2.20 LINK SG CYS B 130 ZN ZN B1133 1555 1555 2.57 SITE 1 AC1 4 MET A 260 SER A 261 ARG A 279 HOH A2200 SITE 1 AC2 3 ASN A 55 HOH A2061 HOH A2062 SITE 1 AC3 18 ASN A 43 TYR A 47 GLY A 71 GLY A 73 SITE 2 AC3 18 SER A 74 PRO A 80 GLY A 81 ASP A 99 SITE 3 AC3 18 LEU A 100 ASP A 114 CYS A 115 ASP A 130 SITE 4 AC3 18 MET A 131 TYR A 132 PHE A 149 HOH A2089 SITE 5 AC3 18 HOH A2115 HOH A2138 SITE 1 AC4 4 ASP A 220 HOH A2174 HOH A2175 HOH A2176 SITE 1 AC5 7 LEU A 59 ALA A 60 GLY A 164 GLY A 165 SITE 2 AC5 7 SER A 166 ASN A 210 HOH A2074 SITE 1 AC6 6 HOH A2073 HOH A2157 HOH A2212 HOH A3001 SITE 2 AC6 6 HOH A3002 HOH A3003 SITE 1 AC7 4 CYS B 74 CYS B 77 HIS B 83 CYS B 90 SITE 1 AC8 4 CYS B 117 CYS B 120 CYS B 128 CYS B 130 CRYST1 68.070 184.616 128.827 90.00 90.00 90.00 C 2 2 21 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 0.014691 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005417 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007762 0.00000