HEADER HYDROLASE 26-JUN-20 6XKH TITLE THE 1.28A CRYSTAL STRUCTURE OF 3CL MAINPRO OF SARS-COV-2 WITH OXIDIZED TITLE 2 C145 (SULFINIC ACID CYSTEINE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3C-LIKE PROTEINASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.22.69; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 3 2; SOURCE 4 ORGANISM_COMMON: 2019-NCOV; SOURCE 5 ORGANISM_TAXID: 2697049; SOURCE 6 GENE: REP, 1A-1B; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SARS-COV-2, 3CL MAIN PROTEASE, STRUCTURAL GENOMICS, CENTER FOR KEYWDS 2 STRUCTURAL GENOMICS OF INFECTIOUS DISEASES, CSGID, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.TAN,N.I.MALTSEVA,L.F.WELK,R.P.JEDRZEJCZAK,L.COATES,A.KOVALEVSKY, AUTHOR 2 A.JOACHIMIAK,CENTER FOR STRUCTURAL GENOMICS OF INFECTIOUS DISEASES AUTHOR 3 (CSGID) REVDAT 3 13-NOV-24 6XKH 1 REMARK REVDAT 2 18-OCT-23 6XKH 1 REMARK REVDAT 1 08-JUL-20 6XKH 0 SPRSDE 08-JUL-20 6XKH 6XG2 JRNL AUTH K.TAN,N.I.MALTSEVA,L.F.WELK,R.P.JEDRZEJCZAK,L.COATES, JRNL AUTH 2 A.KOVALEVSKY,A.JOACHIMIAK JRNL TITL THE 1.28A CRYSTAL STRUCTURE OF 3CL MAINPRO OF SARS-COV-2 JRNL TITL 2 WITH OXIDIZED C145 (SULFINIC ACID CYSTEINE) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.64 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 96119 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.175 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.130 REMARK 3 FREE R VALUE TEST SET COUNT : 4932 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 32.6400 - 3.9800 0.97 3067 174 0.1317 0.1560 REMARK 3 2 3.9800 - 3.1600 0.99 3088 181 0.1363 0.1638 REMARK 3 3 3.1600 - 2.7600 0.99 3089 167 0.1481 0.1539 REMARK 3 4 2.7600 - 2.5100 0.97 2992 184 0.1514 0.1760 REMARK 3 5 2.5100 - 2.3300 0.99 3086 171 0.1478 0.1721 REMARK 3 6 2.3300 - 2.1900 0.99 3064 175 0.1485 0.1623 REMARK 3 7 2.1900 - 2.0800 1.00 3134 154 0.1508 0.1561 REMARK 3 8 2.0800 - 1.9900 1.00 3069 157 0.1571 0.1551 REMARK 3 9 1.9900 - 1.9100 0.99 3075 176 0.1557 0.1513 REMARK 3 10 1.9100 - 1.8500 0.97 2997 171 0.1697 0.1871 REMARK 3 11 1.8500 - 1.7900 0.99 3037 171 0.1618 0.2008 REMARK 3 12 1.7900 - 1.7400 1.00 3066 168 0.1693 0.1909 REMARK 3 13 1.7400 - 1.6900 0.99 3089 147 0.1615 0.1966 REMARK 3 14 1.6900 - 1.6500 1.00 3094 156 0.1661 0.1588 REMARK 3 15 1.6500 - 1.6100 1.00 3079 158 0.1703 0.1924 REMARK 3 16 1.6100 - 1.5800 1.00 3119 159 0.1704 0.2001 REMARK 3 17 1.5800 - 1.5500 1.00 3115 141 0.1704 0.1683 REMARK 3 18 1.5500 - 1.5200 0.95 2908 148 0.1839 0.2222 REMARK 3 19 1.5200 - 1.4900 0.98 3080 153 0.1842 0.2118 REMARK 3 20 1.4900 - 1.4700 0.99 3046 168 0.1988 0.2448 REMARK 3 21 1.4700 - 1.4400 0.99 3006 159 0.2110 0.2301 REMARK 3 22 1.4400 - 1.4200 0.99 3076 178 0.2235 0.2354 REMARK 3 23 1.4200 - 1.4000 1.00 3051 191 0.2329 0.2961 REMARK 3 24 1.4000 - 1.3800 0.99 3035 177 0.2472 0.2620 REMARK 3 25 1.3800 - 1.3600 1.00 3094 159 0.2585 0.2830 REMARK 3 26 1.3600 - 1.3400 1.00 3093 170 0.2636 0.2540 REMARK 3 27 1.3400 - 1.3300 0.99 3016 172 0.2764 0.2667 REMARK 3 28 1.3300 - 1.3100 0.93 2942 145 0.2755 0.2953 REMARK 3 29 1.3100 - 1.3000 0.96 2949 167 0.3128 0.3151 REMARK 3 30 1.3000 - 1.2800 0.86 2631 135 0.3181 0.3354 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) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.125 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.36 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.08 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 : 0.009 2540 REMARK 3 ANGLE : 1.013 3464 REMARK 3 CHIRALITY : 0.082 391 REMARK 3 PLANARITY : 0.008 455 REMARK 3 DIHEDRAL : 19.253 920 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 43 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.0028 10.5685 12.5926 REMARK 3 T TENSOR REMARK 3 T11: 0.2150 T22: 0.1756 REMARK 3 T33: 0.1857 T12: -0.0517 REMARK 3 T13: 0.0681 T23: -0.0227 REMARK 3 L TENSOR REMARK 3 L11: 0.9834 L22: 2.1476 REMARK 3 L33: 5.9705 L12: 0.2399 REMARK 3 L13: 0.2084 L23: 2.0974 REMARK 3 S TENSOR REMARK 3 S11: 0.1552 S12: -0.0347 S13: 0.0852 REMARK 3 S21: -0.1316 S22: 0.0450 S23: -0.2775 REMARK 3 S31: -0.3198 S32: 0.2284 S33: -0.1806 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 44 THROUGH 76 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.9054 14.5500 28.7724 REMARK 3 T TENSOR REMARK 3 T11: 0.2385 T22: 0.3348 REMARK 3 T33: 0.3392 T12: -0.0816 REMARK 3 T13: -0.0250 T23: -0.1305 REMARK 3 L TENSOR REMARK 3 L11: 2.1244 L22: 6.9067 REMARK 3 L33: 6.7333 L12: 1.9510 REMARK 3 L13: -0.5480 L23: -2.0266 REMARK 3 S TENSOR REMARK 3 S11: 0.1146 S12: -0.3331 S13: 0.0349 REMARK 3 S21: 0.3189 S22: -0.0534 S23: -0.7748 REMARK 3 S31: -0.3413 S32: 0.8276 S33: -0.0253 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 77 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.5947 13.8007 17.2280 REMARK 3 T TENSOR REMARK 3 T11: 0.2691 T22: 0.1417 REMARK 3 T33: 0.1535 T12: -0.0044 REMARK 3 T13: 0.0588 T23: -0.0252 REMARK 3 L TENSOR REMARK 3 L11: 1.2156 L22: 3.2936 REMARK 3 L33: 2.1638 L12: 0.5541 REMARK 3 L13: -0.3100 L23: 0.4659 REMARK 3 S TENSOR REMARK 3 S11: 0.0655 S12: -0.0667 S13: 0.2028 REMARK 3 S21: -0.1012 S22: 0.0663 S23: -0.0604 REMARK 3 S31: -0.5058 S32: 0.0342 S33: -0.0898 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.9207 2.1527 10.2212 REMARK 3 T TENSOR REMARK 3 T11: 0.1813 T22: 0.1683 REMARK 3 T33: 0.1023 T12: -0.0164 REMARK 3 T13: 0.0186 T23: -0.0261 REMARK 3 L TENSOR REMARK 3 L11: 2.0339 L22: 4.7341 REMARK 3 L33: 3.2078 L12: 1.0879 REMARK 3 L13: -1.0724 L23: 0.2233 REMARK 3 S TENSOR REMARK 3 S11: 0.0247 S12: 0.0092 S13: -0.0084 REMARK 3 S21: -0.1689 S22: 0.0745 S23: -0.2448 REMARK 3 S31: -0.2264 S32: 0.1469 S33: -0.0675 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 156 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.5668 -4.3149 15.8276 REMARK 3 T TENSOR REMARK 3 T11: 0.1386 T22: 0.1620 REMARK 3 T33: 0.1368 T12: -0.0018 REMARK 3 T13: 0.0098 T23: -0.0054 REMARK 3 L TENSOR REMARK 3 L11: 1.1008 L22: 1.8867 REMARK 3 L33: 4.0540 L12: 0.5693 REMARK 3 L13: 0.4843 L23: 1.4279 REMARK 3 S TENSOR REMARK 3 S11: 0.0802 S12: -0.0216 S13: -0.0964 REMARK 3 S21: 0.1499 S22: 0.0284 S23: -0.1566 REMARK 3 S31: 0.2416 S32: 0.1028 S33: -0.1169 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 306 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.1392 -15.9189 1.3933 REMARK 3 T TENSOR REMARK 3 T11: 0.2313 T22: 0.2848 REMARK 3 T33: 0.1359 T12: -0.0786 REMARK 3 T13: 0.0185 T23: -0.0473 REMARK 3 L TENSOR REMARK 3 L11: 2.9237 L22: 3.6431 REMARK 3 L33: 4.5852 L12: 0.7084 REMARK 3 L13: 0.3300 L23: 0.9127 REMARK 3 S TENSOR REMARK 3 S11: -0.0106 S12: 0.0724 S13: -0.1632 REMARK 3 S21: 0.0139 S22: -0.0418 S23: 0.1849 REMARK 3 S31: 0.3680 S32: -0.4502 S33: 0.0300 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 6XKH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUN-20. REMARK 100 THE DEPOSITION ID IS D_1000250316. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUN-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 96251 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.280 REMARK 200 RESOLUTION RANGE LOW (A) : 34.640 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 40.7500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 1.09500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.030 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: HKL-3000 REMARK 200 STARTING MODEL: 6YB7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS, 15% (W/V) PEG6000, PH 8.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 48.32500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.65650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 48.32500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 41.65650 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 535 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 667 LIES ON A SPECIAL POSITION. 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 A 682 O HOH A 682 2555 1.89 REMARK 500 O HOH A 585 O HOH A 588 2556 2.18 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 ASP A 33 -131.07 51.58 REMARK 500 ASN A 51 67.00 -159.41 REMARK 500 ASN A 51 68.03 -159.90 REMARK 500 ASN A 84 -125.26 53.20 REMARK 500 TYR A 154 -110.18 52.31 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 407 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6XKF RELATED DB: PDB REMARK 900 SULFENIC ACID CYSTEINE C145 DBREF 6XKH A 1 306 UNP P0DTD1 R1AB_SARS2 3264 3569 SEQRES 1 A 306 SER GLY PHE ARG LYS MET ALA PHE PRO SER GLY LYS VAL SEQRES 2 A 306 GLU GLY CYS MET VAL GLN VAL THR CYS GLY THR THR THR SEQRES 3 A 306 LEU ASN GLY LEU TRP LEU ASP ASP VAL VAL TYR CYS PRO SEQRES 4 A 306 ARG HIS VAL ILE CYS THR SER GLU ASP MET LEU ASN PRO SEQRES 5 A 306 ASN TYR GLU ASP LEU LEU ILE ARG LYS SER ASN HIS ASN SEQRES 6 A 306 PHE LEU VAL GLN ALA GLY ASN VAL GLN LEU ARG VAL ILE SEQRES 7 A 306 GLY HIS SER MET GLN ASN CYS VAL LEU LYS LEU LYS VAL SEQRES 8 A 306 ASP THR ALA ASN PRO LYS THR PRO LYS TYR LYS PHE VAL SEQRES 9 A 306 ARG ILE GLN PRO GLY GLN THR PHE SER VAL LEU ALA CYS SEQRES 10 A 306 TYR ASN GLY SER PRO SER GLY VAL TYR GLN CYS ALA MET SEQRES 11 A 306 ARG PRO ASN PHE THR ILE LYS GLY SER PHE LEU ASN GLY SEQRES 12 A 306 SER CSD GLY SER VAL GLY PHE ASN ILE ASP TYR ASP CYS SEQRES 13 A 306 VAL SER PHE CYS TYR MET HIS HIS MET GLU LEU PRO THR SEQRES 14 A 306 GLY VAL HIS ALA GLY THR ASP LEU GLU GLY ASN PHE TYR SEQRES 15 A 306 GLY PRO PHE VAL ASP ARG GLN THR ALA GLN ALA ALA GLY SEQRES 16 A 306 THR ASP THR THR ILE THR VAL ASN VAL LEU ALA TRP LEU SEQRES 17 A 306 TYR ALA ALA VAL ILE ASN GLY ASP ARG TRP PHE LEU ASN SEQRES 18 A 306 ARG PHE THR THR THR LEU ASN ASP PHE ASN LEU VAL ALA SEQRES 19 A 306 MET LYS TYR ASN TYR GLU PRO LEU THR GLN ASP HIS VAL SEQRES 20 A 306 ASP ILE LEU GLY PRO LEU SER ALA GLN THR GLY ILE ALA SEQRES 21 A 306 VAL LEU ASP MET CYS ALA SER LEU LYS GLU LEU LEU GLN SEQRES 22 A 306 ASN GLY MET ASN GLY ARG THR ILE LEU GLY SER ALA LEU SEQRES 23 A 306 LEU GLU ASP GLU PHE THR PRO PHE ASP VAL VAL ARG GLN SEQRES 24 A 306 CYS SER GLY VAL THR PHE GLN MODRES 6XKH CSD A 145 CYS MODIFIED RESIDUE HET CSD A 145 13 HET EDO A 401 10 HET EDO A 402 10 HET FMT A 403 5 HET FMT A 404 5 HET FMT A 405 5 HET FMT A 406 5 HET ACT A 407 7 HETNAM CSD 3-SULFINOALANINE HETNAM EDO 1,2-ETHANEDIOL HETNAM FMT FORMIC ACID HETNAM ACT ACETATE ION HETSYN CSD S-CYSTEINESULFINIC ACID; S-SULFINOCYSTEINE HETSYN EDO ETHYLENE GLYCOL FORMUL 1 CSD C3 H7 N O4 S FORMUL 2 EDO 2(C2 H6 O2) FORMUL 4 FMT 4(C H2 O2) FORMUL 8 ACT C2 H3 O2 1- FORMUL 9 HOH *239(H2 O) HELIX 1 AA1 SER A 10 GLY A 15 1 6 HELIX 2 AA2 HIS A 41 CYS A 44 5 4 HELIX 3 AA3 GLU A 47 ASN A 51 5 5 HELIX 4 AA4 ASN A 53 ARG A 60 1 8 HELIX 5 AA5 LYS A 61 HIS A 64 5 4 HELIX 6 AA6 ILE A 200 ASN A 214 1 15 HELIX 7 AA7 THR A 226 TYR A 237 1 12 HELIX 8 AA8 THR A 243 LEU A 250 1 8 HELIX 9 AA9 LEU A 250 GLY A 258 1 9 HELIX 10 AB1 ALA A 260 GLY A 275 1 16 HELIX 11 AB2 THR A 292 GLY A 302 1 11 SHEET 1 AA1 7 VAL A 73 LEU A 75 0 SHEET 2 AA1 7 PHE A 66 ALA A 70 -1 N ALA A 70 O VAL A 73 SHEET 3 AA1 7 MET A 17 CYS A 22 -1 N THR A 21 O LEU A 67 SHEET 4 AA1 7 THR A 25 LEU A 32 -1 O LEU A 27 N VAL A 20 SHEET 5 AA1 7 VAL A 35 PRO A 39 -1 O TYR A 37 N LEU A 30 SHEET 6 AA1 7 VAL A 86 VAL A 91 -1 O LEU A 87 N CYS A 38 SHEET 7 AA1 7 VAL A 77 GLN A 83 -1 N SER A 81 O LYS A 88 SHEET 1 AA2 5 TYR A 101 PHE A 103 0 SHEET 2 AA2 5 CYS A 156 GLU A 166 1 O PHE A 159 N LYS A 102 SHEET 3 AA2 5 VAL A 148 ASP A 153 -1 N ASN A 151 O SER A 158 SHEET 4 AA2 5 THR A 111 TYR A 118 -1 N SER A 113 O PHE A 150 SHEET 5 AA2 5 SER A 121 ALA A 129 -1 O SER A 123 N ALA A 116 SHEET 1 AA3 3 TYR A 101 PHE A 103 0 SHEET 2 AA3 3 CYS A 156 GLU A 166 1 O PHE A 159 N LYS A 102 SHEET 3 AA3 3 HIS A 172 THR A 175 -1 O ALA A 173 N MET A 165 LINK C SER A 144 N CSD A 145 1555 1555 1.34 LINK C CSD A 145 N GLY A 146 1555 1555 1.33 SITE 1 AC1 4 THR A 25 HIS A 41 CYS A 44 MET A 49 SITE 1 AC2 4 THR A 226 ASN A 228 ASP A 229 HOH A 502 SITE 1 AC3 5 ASN A 133 PRO A 184 PHE A 185 GLY A 195 SITE 2 AC3 5 HOH A 660 SITE 1 AC4 5 ASN A 72 THR A 226 LEU A 227 HOH A 502 SITE 2 AC4 5 HOH A 549 SITE 1 AC5 6 LEU A 141 SER A 144 CSD A 145 HIS A 163 SITE 2 AC5 6 GLU A 166 HOH A 626 SITE 1 AC6 2 ARG A 40 HOH A 565 SITE 1 AC7 4 GLY A 15 MET A 17 ALA A 70 HOH A 581 CRYST1 96.650 83.313 54.663 90.00 118.00 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010347 0.000000 0.005500 0.00000 SCALE2 0.000000 0.012003 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020718 0.00000