HEADER VIRAL PROTEIN 29-MAR-20 7BRR OBSLTE 28-OCT-20 7BRR 7D1M TITLE CRYSTAL STRUCTURE OF THE 2019-NCOV MAIN PROTEASE COMPLEXED WITH GC376 COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3C-LIKE PROTEINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 3CL-PRO,3CLP; COMPND 5 EC: 3.4.22.69; 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; SOURCE 5 ORGANISM_TAXID: 2697049; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI K-12; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 83333 KEYWDS 2019-NCOV, MAIN PROTEASE, GC376, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.F.FU REVDAT 3 28-OCT-20 7BRR 1 OBSLTE REVDAT 2 27-MAY-20 7BRR 1 HETSYN REVDAT 1 13-MAY-20 7BRR 0 JRNL AUTH L.F.FU JRNL TITL CRYSTAL STRUCTURE OF THE 2019-NCOV MAIN PROTEASE COMPLEXED JRNL TITL 2 WITH GC376 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16_3549 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.02 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.0 REMARK 3 NUMBER OF REFLECTIONS : 108002 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 5504 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 4.3400 - 3.4500 1.00 3839 185 0.1507 0.1810 REMARK 3 2 3.4500 - 3.0100 1.00 3813 216 0.1676 0.1841 REMARK 3 3 3.0100 - 2.7400 1.00 3795 227 0.1751 0.2065 REMARK 3 4 2.7400 - 2.5400 1.00 3790 202 0.1826 0.1844 REMARK 3 5 2.5400 - 2.3900 1.00 3790 205 0.1793 0.1872 REMARK 3 6 2.3900 - 2.2700 1.00 3815 208 0.1786 0.1863 REMARK 3 7 2.2700 - 2.1700 1.00 3790 210 0.1820 0.1992 REMARK 3 8 2.1700 - 2.0900 1.00 3814 201 0.1774 0.1828 REMARK 3 9 2.0900 - 2.0200 1.00 3819 184 0.1834 0.2137 REMARK 3 10 2.0200 - 1.9500 1.00 3781 215 0.1844 0.2094 REMARK 3 11 1.9500 - 1.9000 1.00 3798 190 0.1909 0.1970 REMARK 3 12 1.9000 - 1.8500 1.00 3796 187 0.1930 0.2181 REMARK 3 13 1.8500 - 1.8000 1.00 3783 186 0.1977 0.2109 REMARK 3 14 1.8000 - 1.7600 1.00 3806 195 0.2027 0.2121 REMARK 3 15 1.7600 - 1.7200 1.00 3791 210 0.2018 0.2294 REMARK 3 16 1.7200 - 1.6900 1.00 3808 193 0.2091 0.2100 REMARK 3 17 1.6900 - 1.6600 1.00 3793 208 0.2100 0.2108 REMARK 3 18 1.6600 - 1.6300 1.00 3772 201 0.2180 0.2182 REMARK 3 19 1.6300 - 1.6000 0.99 3753 200 0.2235 0.2496 REMARK 3 20 1.6000 - 1.5800 0.98 3674 219 0.2217 0.2385 REMARK 3 21 1.5800 - 1.5500 0.91 3501 172 0.0000 0.2101 REMARK 3 22 1.5500 - 1.5300 0.86 3225 172 0.2234 0.2254 REMARK 3 23 1.5300 - 1.5100 0.80 3058 160 0.2207 0.2514 REMARK 3 24 1.5100 - 1.4900 0.74 2793 164 0.0000 0.2269 REMARK 3 25 1.4900 - 1.4700 0.68 2580 129 0.2343 0.2415 REMARK 3 26 1.4700 - 1.4500 0.63 2358 129 0.0000 0.2293 REMARK 3 27 1.4500 - 1.4300 0.54 2057 108 0.2548 0.2660 REMARK 3 28 1.4300 - 1.4100 0.49 1844 95 0.2557 0.2731 REMARK 3 29 1.4100 - 1.4000 0.37 1419 89 0.2438 0.2911 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.113 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.957 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.92 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.52 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 : 0.012 4892 REMARK 3 ANGLE : 1.184 6671 REMARK 3 CHIRALITY : 0.096 755 REMARK 3 PLANARITY : 0.011 867 REMARK 3 DIHEDRAL : 20.839 1767 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): 7.8676 -3.6251 14.6038 REMARK 3 T TENSOR REMARK 3 T11: 0.0574 T22: 0.0717 REMARK 3 T33: 0.0754 T12: -0.0170 REMARK 3 T13: 0.0111 T23: 0.0130 REMARK 3 L TENSOR REMARK 3 L11: 0.7923 L22: 0.5666 REMARK 3 L33: 1.0768 L12: 0.1064 REMARK 3 L13: -0.1323 L23: -0.2572 REMARK 3 S TENSOR REMARK 3 S11: -0.0185 S12: -0.0596 S13: -0.0130 REMARK 3 S21: -0.0260 S22: -0.0022 S23: -0.0593 REMARK 3 S31: -0.0053 S32: -0.0526 S33: 0.0162 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -18.7490 -9.6860 15.7195 REMARK 3 T TENSOR REMARK 3 T11: 0.0753 T22: 0.0738 REMARK 3 T33: 0.0640 T12: -0.0167 REMARK 3 T13: -0.0103 T23: 0.0030 REMARK 3 L TENSOR REMARK 3 L11: 0.2563 L22: 1.7590 REMARK 3 L33: 0.2208 L12: -0.1419 REMARK 3 L13: -0.0382 L23: 0.0443 REMARK 3 S TENSOR REMARK 3 S11: -0.0190 S12: 0.0150 S13: -0.0087 REMARK 3 S21: -0.2045 S22: 0.0339 S23: 0.1415 REMARK 3 S31: -0.0147 S32: 0.0127 S33: -0.0095 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 7BRR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1300016369. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-FEB-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 120024 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 43.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: 3F9F REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 6000, 100MM MES, 3% DMSO, PH REMARK 280 6.1, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 49.50950 REMARK 290 SMTRY3 2 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: 2080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 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 GLY A 0 REMARK 465 SER A 1 REMARK 465 THR A 304 REMARK 465 PHE A 305 REMARK 465 GLN A 306 REMARK 465 GLY B 0 REMARK 465 SER B 1 REMARK 465 GLY B 2 REMARK 465 GLY B 302 REMARK 465 VAL B 303 REMARK 465 THR B 304 REMARK 465 PHE B 305 REMARK 465 GLN B 306 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HD21 ASN A 51 O HOH A 501 1.26 REMARK 500 HZ2 LYS B 5 O HOH B 502 1.28 REMARK 500 H ALA B 194 O HOH B 505 1.38 REMARK 500 O ARG B 4 HE22 GLN B 299 1.44 REMARK 500 HH12 ARG B 188 O HOH B 503 1.49 REMARK 500 HH TYR B 154 O HOH B 501 1.49 REMARK 500 HH TYR B 101 O HOH B 507 1.58 REMARK 500 O HOH B 757 O HOH B 823 1.83 REMARK 500 OH TYR B 154 O HOH B 501 1.86 REMARK 500 O HOH A 515 O HOH A 532 1.86 REMARK 500 NZ LYS B 5 O HOH B 502 1.86 REMARK 500 O HOH A 738 O HOH A 772 1.89 REMARK 500 O HOH B 642 O HOH B 740 1.89 REMARK 500 O HOH B 742 O HOH B 793 1.92 REMARK 500 O HOH B 693 O HOH B 715 1.94 REMARK 500 O HOH A 519 O HOH B 761 1.96 REMARK 500 NH1 ARG B 188 O HOH B 503 2.00 REMARK 500 O HOH B 645 O HOH B 721 2.01 REMARK 500 O HOH B 725 O HOH B 782 2.01 REMARK 500 O HOH A 699 O HOH A 760 2.02 REMARK 500 O HOH A 766 O HOH A 825 2.04 REMARK 500 ND2 ASN A 51 O HOH A 501 2.05 REMARK 500 OD1 ASP A 229 O HOH A 502 2.06 REMARK 500 O HOH B 700 O HOH B 799 2.06 REMARK 500 O PHE A 223 O HOH A 503 2.08 REMARK 500 O HOH B 511 O HOH B 563 2.08 REMARK 500 O HOH A 589 O HOH A 774 2.09 REMARK 500 O HOH B 711 O HOH B 725 2.12 REMARK 500 O HOH A 683 O HOH A 732 2.13 REMARK 500 O HOH A 762 O HOH A 819 2.13 REMARK 500 OE1 GLN B 189 O HOH B 504 2.14 REMARK 500 O HOH A 639 O HOH A 736 2.14 REMARK 500 NZ LYS A 102 O HOH A 504 2.14 REMARK 500 O HOH B 750 O HOH B 800 2.14 REMARK 500 O HOH B 512 O HOH B 551 2.14 REMARK 500 O HOH B 518 O HOH B 687 2.14 REMARK 500 O HOH A 687 O HOH B 800 2.15 REMARK 500 O HOH A 697 O HOH A 749 2.16 REMARK 500 O HOH B 719 O HOH B 731 2.17 REMARK 500 N ALA B 194 O HOH B 505 2.18 REMARK 500 O HOH A 596 O HOH A 628 2.18 REMARK 500 O ARG B 4 NE2 GLN B 299 2.18 REMARK 500 O HOH A 740 O HOH B 743 2.18 REMARK 500 O THR A 196 O HOH A 505 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 OE1 GLU B 47 OH TYR B 237 2445 1.05 REMARK 500 HA ASP A 56 HH11 ARG A 222 1656 1.12 REMARK 500 HB2 GLU A 55 HH22 ARG A 222 1656 1.17 REMARK 500 OE1 GLU B 47 HH TYR B 237 2445 1.25 REMARK 500 N ASP A 56 HH12 ARG A 222 1656 1.38 REMARK 500 HB3 GLU A 55 NH2 ARG A 222 1656 1.58 REMARK 500 CD GLU B 47 OH TYR B 237 2445 1.85 REMARK 500 O HOH A 716 O HOH B 523 1655 1.88 REMARK 500 N ASP A 56 NH1 ARG A 222 1656 1.91 REMARK 500 O HOH A 558 O HOH B 526 2546 1.92 REMARK 500 CB GLU A 55 NH2 ARG A 222 1656 2.07 REMARK 500 CA ASP A 56 NH1 ARG A 222 1656 2.16 REMARK 500 O HOH A 561 O HOH B 719 2555 2.17 REMARK 500 C GLU A 55 NH1 ARG A 222 1656 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 TYR A 154 C - N - CA ANGL. DEV. = 18.8 DEGREES REMARK 500 TYR A 154 CB - CA - C ANGL. DEV. = -24.2 DEGREES REMARK 500 TYR A 154 CA - CB - CG ANGL. DEV. = 12.5 DEGREES REMARK 500 ARG A 222 CB - CG - CD ANGL. DEV. = -16.8 DEGREES REMARK 500 ARG A 222 CG - CD - NE ANGL. DEV. = -17.6 DEGREES REMARK 500 ARG A 222 NE - CZ - NH1 ANGL. DEV. = -3.5 DEGREES REMARK 500 ASP B 33 CB - CA - C ANGL. DEV. = 12.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 51 69.20 -158.87 REMARK 500 TYR A 154 -10.56 72.30 REMARK 500 PRO A 184 46.77 -83.67 REMARK 500 ASP B 33 -118.24 51.75 REMARK 500 ASN B 84 -120.28 56.16 REMARK 500 TYR B 154 -107.38 58.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LEU A 32 ASP A 33 -109.98 REMARK 500 GLN A 83 ASN A 84 -111.44 REMARK 500 ASP A 153 TYR A 154 147.06 REMARK 500 TYR A 154 ASP A 155 113.21 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 828 DISTANCE = 6.57 ANGSTROMS REMARK 630 REMARK 630 MOLECULE TYPE: NULL REMARK 630 MOLECULE NAME: (1S,2S)-2-({N-[(BENZYLOXY)CARBONYL]-L-LEUCYL}AMINO)- REMARK 630 1-HYDROXY-3-[(3S)-2-OXOPYRROLIDIN-3-YL]PROPANE-1-SULFONIC ACID REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 K36 A 401 REMARK 630 K36 B 401 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: PHQ LEU 04F REMARK 630 DETAILS: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K36 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide K36 B 401 and CYS B REMARK 800 145 DBREF 7BRR A 1 306 UNP P0DTC1 R1A_SARS2 3264 3569 DBREF 7BRR B 1 306 UNP P0DTC1 R1A_SARS2 3264 3569 SEQADV 7BRR GLY A 0 UNP P0DTC1 EXPRESSION TAG SEQADV 7BRR GLY B 0 UNP P0DTC1 EXPRESSION TAG SEQRES 1 A 307 GLY SER GLY PHE ARG LYS MET ALA PHE PRO SER GLY LYS SEQRES 2 A 307 VAL GLU GLY CYS MET VAL GLN VAL THR CYS GLY THR THR SEQRES 3 A 307 THR LEU ASN GLY LEU TRP LEU ASP ASP VAL VAL TYR CYS SEQRES 4 A 307 PRO ARG HIS VAL ILE CYS THR SER GLU ASP MET LEU ASN SEQRES 5 A 307 PRO ASN TYR GLU ASP LEU LEU ILE ARG LYS SER ASN HIS SEQRES 6 A 307 ASN PHE LEU VAL GLN ALA GLY ASN VAL GLN LEU ARG VAL SEQRES 7 A 307 ILE GLY HIS SER MET GLN ASN CYS VAL LEU LYS LEU LYS SEQRES 8 A 307 VAL ASP THR ALA ASN PRO LYS THR PRO LYS TYR LYS PHE SEQRES 9 A 307 VAL ARG ILE GLN PRO GLY GLN THR PHE SER VAL LEU ALA SEQRES 10 A 307 CYS TYR ASN GLY SER PRO SER GLY VAL TYR GLN CYS ALA SEQRES 11 A 307 MET ARG PRO ASN PHE THR ILE LYS GLY SER PHE LEU ASN SEQRES 12 A 307 GLY SER CYS GLY SER VAL GLY PHE ASN ILE ASP TYR ASP SEQRES 13 A 307 CYS VAL SER PHE CYS TYR MET HIS HIS MET GLU LEU PRO SEQRES 14 A 307 THR GLY VAL HIS ALA GLY THR ASP LEU GLU GLY ASN PHE SEQRES 15 A 307 TYR GLY PRO PHE VAL ASP ARG GLN THR ALA GLN ALA ALA SEQRES 16 A 307 GLY THR ASP THR THR ILE THR VAL ASN VAL LEU ALA TRP SEQRES 17 A 307 LEU TYR ALA ALA VAL ILE ASN GLY ASP ARG TRP PHE LEU SEQRES 18 A 307 ASN ARG PHE THR THR THR LEU ASN ASP PHE ASN LEU VAL SEQRES 19 A 307 ALA MET LYS TYR ASN TYR GLU PRO LEU THR GLN ASP HIS SEQRES 20 A 307 VAL ASP ILE LEU GLY PRO LEU SER ALA GLN THR GLY ILE SEQRES 21 A 307 ALA VAL LEU ASP MET CYS ALA SER LEU LYS GLU LEU LEU SEQRES 22 A 307 GLN ASN GLY MET ASN GLY ARG THR ILE LEU GLY SER ALA SEQRES 23 A 307 LEU LEU GLU ASP GLU PHE THR PRO PHE ASP VAL VAL ARG SEQRES 24 A 307 GLN CYS SER GLY VAL THR PHE GLN SEQRES 1 B 307 GLY SER GLY PHE ARG LYS MET ALA PHE PRO SER GLY LYS SEQRES 2 B 307 VAL GLU GLY CYS MET VAL GLN VAL THR CYS GLY THR THR SEQRES 3 B 307 THR LEU ASN GLY LEU TRP LEU ASP ASP VAL VAL TYR CYS SEQRES 4 B 307 PRO ARG HIS VAL ILE CYS THR SER GLU ASP MET LEU ASN SEQRES 5 B 307 PRO ASN TYR GLU ASP LEU LEU ILE ARG LYS SER ASN HIS SEQRES 6 B 307 ASN PHE LEU VAL GLN ALA GLY ASN VAL GLN LEU ARG VAL SEQRES 7 B 307 ILE GLY HIS SER MET GLN ASN CYS VAL LEU LYS LEU LYS SEQRES 8 B 307 VAL ASP THR ALA ASN PRO LYS THR PRO LYS TYR LYS PHE SEQRES 9 B 307 VAL ARG ILE GLN PRO GLY GLN THR PHE SER VAL LEU ALA SEQRES 10 B 307 CYS TYR ASN GLY SER PRO SER GLY VAL TYR GLN CYS ALA SEQRES 11 B 307 MET ARG PRO ASN PHE THR ILE LYS GLY SER PHE LEU ASN SEQRES 12 B 307 GLY SER CYS GLY SER VAL GLY PHE ASN ILE ASP TYR ASP SEQRES 13 B 307 CYS VAL SER PHE CYS TYR MET HIS HIS MET GLU LEU PRO SEQRES 14 B 307 THR GLY VAL HIS ALA GLY THR ASP LEU GLU GLY ASN PHE SEQRES 15 B 307 TYR GLY PRO PHE VAL ASP ARG GLN THR ALA GLN ALA ALA SEQRES 16 B 307 GLY THR ASP THR THR ILE THR VAL ASN VAL LEU ALA TRP SEQRES 17 B 307 LEU TYR ALA ALA VAL ILE ASN GLY ASP ARG TRP PHE LEU SEQRES 18 B 307 ASN ARG PHE THR THR THR LEU ASN ASP PHE ASN LEU VAL SEQRES 19 B 307 ALA MET LYS TYR ASN TYR GLU PRO LEU THR GLN ASP HIS SEQRES 20 B 307 VAL ASP ILE LEU GLY PRO LEU SER ALA GLN THR GLY ILE SEQRES 21 B 307 ALA VAL LEU ASP MET CYS ALA SER LEU LYS GLU LEU LEU SEQRES 22 B 307 GLN ASN GLY MET ASN GLY ARG THR ILE LEU GLY SER ALA SEQRES 23 B 307 LEU LEU GLU ASP GLU PHE THR PRO PHE ASP VAL VAL ARG SEQRES 24 B 307 GLN CYS SER GLY VAL THR PHE GLN HET K36 A 401 59 HET K36 B 401 59 HETNAM K36 (1S,2S)-2-({N-[(BENZYLOXY)CARBONYL]-L-LEUCYL}AMINO)-1- HETNAM 2 K36 HYDROXY-3-[(3S)-2-OXOPYRROLIDIN-3-YL]PROPANE-1- HETNAM 3 K36 SULFONIC ACID HETSYN K36 GC376 FORMUL 3 K36 2(C21 H31 N3 O8 S) FORMUL 5 HOH *667(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 THR A 45 ASN A 51 1 7 HELIX 4 AA4 ASN A 53 ARG A 60 1 8 HELIX 5 AA5 SER A 62 PHE A 66 5 5 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 SER A 301 1 10 HELIX 12 AB3 SER B 10 GLY B 15 1 6 HELIX 13 AB4 HIS B 41 CYS B 44 5 4 HELIX 14 AB5 SER B 46 ASN B 51 5 6 HELIX 15 AB6 ASN B 53 ARG B 60 1 8 HELIX 16 AB7 SER B 62 PHE B 66 5 5 HELIX 17 AB8 ILE B 200 ASN B 214 1 15 HELIX 18 AB9 THR B 226 TYR B 237 1 12 HELIX 19 AC1 THR B 243 LEU B 250 1 8 HELIX 20 AC2 LEU B 250 GLY B 258 1 9 HELIX 21 AC3 ALA B 260 GLY B 275 1 16 HELIX 22 AC4 THR B 292 CYS B 300 1 9 SHEET 1 AA1 7 VAL A 73 LEU A 75 0 SHEET 2 AA1 7 LEU A 67 ALA A 70 -1 N ALA A 70 O VAL A 73 SHEET 3 AA1 7 MET A 17 CYS A 22 -1 N GLN A 19 O GLN A 69 SHEET 4 AA1 7 THR A 25 LEU A 32 -1 O THR A 25 N CYS A 22 SHEET 5 AA1 7 VAL A 35 PRO A 39 -1 O VAL A 35 N LEU A 32 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 GLN A 83 O VAL A 86 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 SHEET 1 AA4 7 VAL B 73 LEU B 75 0 SHEET 2 AA4 7 LEU B 67 ALA B 70 -1 N ALA B 70 O VAL B 73 SHEET 3 AA4 7 MET B 17 CYS B 22 -1 N GLN B 19 O GLN B 69 SHEET 4 AA4 7 THR B 25 LEU B 32 -1 O LEU B 27 N VAL B 20 SHEET 5 AA4 7 VAL B 35 PRO B 39 -1 O TYR B 37 N LEU B 30 SHEET 6 AA4 7 VAL B 86 VAL B 91 -1 O LEU B 87 N CYS B 38 SHEET 7 AA4 7 VAL B 77 GLN B 83 -1 N ILE B 78 O LYS B 90 SHEET 1 AA5 5 LYS B 100 PHE B 103 0 SHEET 2 AA5 5 CYS B 156 GLU B 166 1 O VAL B 157 N LYS B 100 SHEET 3 AA5 5 VAL B 148 ASP B 153 -1 N ASN B 151 O SER B 158 SHEET 4 AA5 5 THR B 111 TYR B 118 -1 N SER B 113 O PHE B 150 SHEET 5 AA5 5 SER B 121 ALA B 129 -1 O SER B 123 N ALA B 116 SHEET 1 AA6 3 LYS B 100 PHE B 103 0 SHEET 2 AA6 3 CYS B 156 GLU B 166 1 O VAL B 157 N LYS B 100 SHEET 3 AA6 3 HIS B 172 THR B 175 -1 O ALA B 173 N MET B 165 LINK SG CYS A 145 C21BK36 A 401 1555 1555 1.81 LINK SG CYS B 145 C21BK36 B 401 1555 1555 1.81 SITE 1 AC1 15 PHE A 140 LEU A 141 ASN A 142 GLY A 143 SITE 2 AC1 15 SER A 144 CYS A 145 HIS A 163 HIS A 164 SITE 3 AC1 15 MET A 165 GLU A 166 HIS A 172 GLN A 189 SITE 4 AC1 15 HOH A 601 HOH A 623 HOH A 699 SITE 1 AC2 16 LEU B 27 ASN B 28 HIS B 41 PHE B 140 SITE 2 AC2 16 ASN B 142 GLY B 143 SER B 144 GLY B 146 SITE 3 AC2 16 SER B 147 HIS B 163 HIS B 164 MET B 165 SITE 4 AC2 16 GLU B 166 HIS B 172 GLN B 189 HOH B 704 CRYST1 55.450 99.019 59.582 90.00 108.54 90.00 P 1 21 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 0.018034 0.000000 0.006048 0.00000 SCALE2 0.000000 0.010099 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017702 0.00000