HEADER REPLICATION 13-APR-20 7BW4 TITLE STRUCTURE OF THE RNA-DEPENDENT RNA POLYMERASE FROM SARS-COV-2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA-DIRECTED RNA POLYMERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PP1AB,ORF1AB POLYPROTEIN,POL,RDRP,NON-STRUCTURAL PROTEIN 12, COMPND 5 NSP12,REPLICASE POLYPROTEIN 1AB; COMPND 6 EC: 2.7.7.48; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: NON-STRUCTURAL PROTEIN 8; COMPND 10 CHAIN: B, D; COMPND 11 SYNONYM: PP1AB,ORF1AB POLYPROTEIN,NSP8,REPLICASE POLYPROTEIN 1AB; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: NON-STRUCTURAL PROTEIN 7; COMPND 15 CHAIN: C; COMPND 16 SYNONYM: PP1AB,ORF1AB POLYPROTEIN,NSP7,REPLICASE POLYPROTEIN 1AB; COMPND 17 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: SPODOPTERA AFF. FRUGIPERDA 1 BOLD-2017; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 2449148; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 11 2; SOURCE 12 ORGANISM_COMMON: 2019-NCOV; SOURCE 13 ORGANISM_TAXID: 2697049; SOURCE 14 GENE: REP, 1A-1B; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 MOL_ID: 3; SOURCE 18 ORGANISM_SCIENTIFIC: SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS SOURCE 19 2; SOURCE 20 ORGANISM_COMMON: 2019-NCOV; SOURCE 21 ORGANISM_TAXID: 2697049; SOURCE 22 GENE: REP, 1A-1B; SOURCE 23 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 24 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SARS-COV-2, POLYMERASE, CRYO-EM, REPLICATION EXPDTA ELECTRON MICROSCOPY AUTHOR Q.PENG,R.PENG,Y.SHI REVDAT 8 27-MAR-24 7BW4 1 REMARK REVDAT 7 10-MAR-21 7BW4 1 COMPND REVDAT 6 26-AUG-20 7BW4 1 COMPND REMARK HELIX SITE REVDAT 6 2 1 ATOM REVDAT 5 01-JUL-20 7BW4 1 JRNL REVDAT 4 24-JUN-20 7BW4 1 JRNL REVDAT 3 17-JUN-20 7BW4 1 JRNL REVDAT 2 10-JUN-20 7BW4 1 COMPND REVDAT 1 27-MAY-20 7BW4 0 JRNL AUTH Q.PENG,R.PENG,B.YUAN,J.ZHAO,M.WANG,X.WANG,Q.WANG,Y.SUN, JRNL AUTH 2 Z.FAN,J.QI,G.F.GAO,Y.SHI JRNL TITL STRUCTURAL AND BIOCHEMICAL CHARACTERIZATION OF THE JRNL TITL 2 NSP12-NSP7-NSP8 CORE POLYMERASE COMPLEX FROM SARS-COV-2. JRNL REF CELL REP V. 31 07774 2020 JRNL REFN ESSN 2211-1247 JRNL PMID 32531208 JRNL DOI 10.1016/J.CELREP.2020.107774 REMARK 2 REMARK 2 RESOLUTION. 3.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 3.700 REMARK 3 NUMBER OF PARTICLES : 101646 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 7BW4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-APR-20. REMARK 100 THE DEPOSITION ID IS D_1300016588. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : THE COMPLEX OF NSP12 BOUND TO REMARK 245 NSP7 AND NSP8 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.40 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TALOS ARCTICA REMARK 245 DETECTOR TYPE : GATAN K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : NULL REMARK 245 MAXIMUM DEFOCUS (NM) : NULL REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 6000.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 200 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ARG A 10 REMARK 465 VAL A 11 REMARK 465 CYS A 12 REMARK 465 GLY A 13 REMARK 465 VAL A 14 REMARK 465 SER A 15 REMARK 465 ALA A 16 REMARK 465 ALA A 17 REMARK 465 ARG A 18 REMARK 465 LEU A 19 REMARK 465 THR A 20 REMARK 465 PRO A 21 REMARK 465 CYS A 22 REMARK 465 GLY A 23 REMARK 465 THR A 24 REMARK 465 GLY A 25 REMARK 465 THR A 26 REMARK 465 SER A 27 REMARK 465 THR A 28 REMARK 465 ASP A 29 REMARK 465 VAL A 30 REMARK 465 THR A 51 REMARK 465 ASN A 52 REMARK 465 CYS A 53 REMARK 465 CYS A 54 REMARK 465 ARG A 55 REMARK 465 PHE A 56 REMARK 465 GLN A 57 REMARK 465 GLU A 58 REMARK 465 LYS A 59 REMARK 465 ASP A 60 REMARK 465 GLU A 61 REMARK 465 ASP A 62 REMARK 465 ASP A 63 REMARK 465 ASN A 64 REMARK 465 LEU A 65 REMARK 465 ILE A 66 REMARK 465 ASP A 67 REMARK 465 SER A 68 REMARK 465 TYR A 69 REMARK 465 PHE A 70 REMARK 465 VAL A 71 REMARK 465 VAL A 72 REMARK 465 LYS A 73 REMARK 465 ARG A 74 REMARK 465 HIS A 75 REMARK 465 THR A 76 REMARK 465 PHE A 77 REMARK 465 SER A 78 REMARK 465 ASN A 79 REMARK 465 TYR A 80 REMARK 465 GLN A 81 REMARK 465 HIS A 82 REMARK 465 GLU A 83 REMARK 465 GLU A 84 REMARK 465 THR A 85 REMARK 465 ILE A 86 REMARK 465 TYR A 87 REMARK 465 ASN A 88 REMARK 465 LEU A 89 REMARK 465 LEU A 90 REMARK 465 LYS A 91 REMARK 465 ASP A 92 REMARK 465 CYS A 93 REMARK 465 PRO A 94 REMARK 465 ALA A 95 REMARK 465 VAL A 96 REMARK 465 ALA A 97 REMARK 465 LYS A 98 REMARK 465 HIS A 99 REMARK 465 ASP A 100 REMARK 465 PHE A 101 REMARK 465 PHE A 102 REMARK 465 LYS A 103 REMARK 465 PHE A 104 REMARK 465 ARG A 105 REMARK 465 ILE A 106 REMARK 465 ASP A 107 REMARK 465 GLY A 108 REMARK 465 ASP A 109 REMARK 465 MET A 110 REMARK 465 VAL A 111 REMARK 465 PRO A 112 REMARK 465 HIS A 113 REMARK 465 ILE A 114 REMARK 465 SER A 115 REMARK 465 ARG A 116 REMARK 465 GLN A 117 REMARK 465 ARG A 118 REMARK 465 THR A 896 REMARK 465 GLY A 897 REMARK 465 HIS A 898 REMARK 465 MET A 899 REMARK 465 LEU A 900 REMARK 465 ASP A 901 REMARK 465 MET A 902 REMARK 465 TYR A 903 REMARK 465 SER A 904 REMARK 465 VAL A 905 REMARK 465 MET A 906 REMARK 465 LEU A 907 REMARK 465 THR A 908 REMARK 465 ASN A 909 REMARK 465 ASP A 910 REMARK 465 ASN A 911 REMARK 465 THR A 912 REMARK 465 SER A 913 REMARK 465 ARG A 914 REMARK 465 THR A 929 REMARK 465 VAL A 930 REMARK 465 LEU A 931 REMARK 465 GLN A 932 REMARK 465 ALA B 1 REMARK 465 ILE B 2 REMARK 465 ALA B 3 REMARK 465 SER B 4 REMARK 465 GLU B 5 REMARK 465 PHE B 6 REMARK 465 SER B 7 REMARK 465 SER B 8 REMARK 465 LEU B 9 REMARK 465 PRO B 10 REMARK 465 SER B 11 REMARK 465 TYR B 12 REMARK 465 ALA B 13 REMARK 465 ALA B 14 REMARK 465 PHE B 15 REMARK 465 ALA B 16 REMARK 465 THR B 17 REMARK 465 ALA B 18 REMARK 465 GLN B 19 REMARK 465 GLU B 20 REMARK 465 ALA B 21 REMARK 465 TYR B 22 REMARK 465 GLU B 23 REMARK 465 GLN B 24 REMARK 465 ALA B 25 REMARK 465 VAL B 26 REMARK 465 ALA B 27 REMARK 465 ASN B 28 REMARK 465 GLY B 29 REMARK 465 ASP B 30 REMARK 465 SER B 31 REMARK 465 GLU B 32 REMARK 465 VAL B 33 REMARK 465 VAL B 34 REMARK 465 LEU B 35 REMARK 465 LYS B 36 REMARK 465 LYS B 37 REMARK 465 LEU B 38 REMARK 465 LYS B 39 REMARK 465 LYS B 40 REMARK 465 SER B 41 REMARK 465 LEU B 42 REMARK 465 ASN B 43 REMARK 465 VAL B 44 REMARK 465 ALA B 45 REMARK 465 LYS B 46 REMARK 465 SER B 47 REMARK 465 GLU B 48 REMARK 465 PHE B 49 REMARK 465 ASP B 50 REMARK 465 ARG B 51 REMARK 465 ASP B 52 REMARK 465 ALA B 53 REMARK 465 ALA B 54 REMARK 465 MET B 55 REMARK 465 GLN B 56 REMARK 465 ARG B 57 REMARK 465 LYS B 58 REMARK 465 LEU B 59 REMARK 465 GLU B 60 REMARK 465 LYS B 61 REMARK 465 MET B 62 REMARK 465 ALA B 63 REMARK 465 ASP B 64 REMARK 465 GLN B 65 REMARK 465 ALA B 66 REMARK 465 MET B 67 REMARK 465 THR B 68 REMARK 465 GLN B 69 REMARK 465 MET B 70 REMARK 465 TYR B 71 REMARK 465 LYS B 72 REMARK 465 GLN B 73 REMARK 465 ALA B 74 REMARK 465 ARG B 75 REMARK 465 SER B 76 REMARK 465 GLU B 77 REMARK 465 SER B 193 REMARK 465 ALA B 194 REMARK 465 VAL B 195 REMARK 465 LYS B 196 REMARK 465 LEU B 197 REMARK 465 GLN B 198 REMARK 465 VAL C 66 REMARK 465 ASP C 67 REMARK 465 ILE C 68 REMARK 465 ASN C 69 REMARK 465 LYS C 70 REMARK 465 LEU C 71 REMARK 465 CYS C 72 REMARK 465 GLU C 73 REMARK 465 GLU C 74 REMARK 465 MET C 75 REMARK 465 LEU C 76 REMARK 465 ASP C 77 REMARK 465 ASN C 78 REMARK 465 ARG C 79 REMARK 465 ALA C 80 REMARK 465 THR C 81 REMARK 465 LEU C 82 REMARK 465 GLN C 83 REMARK 465 ALA D 1 REMARK 465 ILE D 2 REMARK 465 ALA D 3 REMARK 465 SER D 4 REMARK 465 GLU D 5 REMARK 465 PHE D 6 REMARK 465 SER D 7 REMARK 465 SER D 8 REMARK 465 LEU D 9 REMARK 465 PRO D 10 REMARK 465 SER D 11 REMARK 465 TYR D 12 REMARK 465 ALA D 13 REMARK 465 ALA D 14 REMARK 465 PHE D 15 REMARK 465 ALA D 16 REMARK 465 THR D 17 REMARK 465 ALA D 18 REMARK 465 GLN D 19 REMARK 465 GLU D 20 REMARK 465 ALA D 21 REMARK 465 TYR D 22 REMARK 465 GLU D 23 REMARK 465 GLN D 24 REMARK 465 ALA D 25 REMARK 465 VAL D 26 REMARK 465 ALA D 27 REMARK 465 ASN D 28 REMARK 465 GLY D 29 REMARK 465 ASP D 30 REMARK 465 SER D 31 REMARK 465 GLU D 32 REMARK 465 VAL D 33 REMARK 465 VAL D 34 REMARK 465 LEU D 35 REMARK 465 LYS D 36 REMARK 465 LYS D 37 REMARK 465 LEU D 38 REMARK 465 LYS D 39 REMARK 465 LYS D 40 REMARK 465 SER D 41 REMARK 465 LEU D 42 REMARK 465 ASN D 43 REMARK 465 VAL D 44 REMARK 465 ALA D 45 REMARK 465 LYS D 46 REMARK 465 SER D 47 REMARK 465 GLU D 48 REMARK 465 PHE D 49 REMARK 465 ASP D 50 REMARK 465 ARG D 51 REMARK 465 ASP D 52 REMARK 465 ALA D 53 REMARK 465 ALA D 54 REMARK 465 MET D 55 REMARK 465 GLN D 56 REMARK 465 ARG D 57 REMARK 465 LYS D 58 REMARK 465 LEU D 59 REMARK 465 GLU D 60 REMARK 465 LYS D 61 REMARK 465 MET D 62 REMARK 465 ALA D 63 REMARK 465 ASP D 64 REMARK 465 GLN D 65 REMARK 465 ALA D 66 REMARK 465 MET D 67 REMARK 465 THR D 68 REMARK 465 GLN D 69 REMARK 465 MET D 70 REMARK 465 TYR D 71 REMARK 465 LYS D 72 REMARK 465 GLN D 73 REMARK 465 ALA D 74 REMARK 465 ARG D 75 REMARK 465 SER D 76 REMARK 465 GLU D 77 REMARK 465 ASP D 78 REMARK 465 LYS D 79 REMARK 465 ARG D 80 REMARK 465 ALA D 81 REMARK 465 LYS D 82 REMARK 465 VAL D 83 REMARK 465 THR D 123 REMARK 465 THR D 124 REMARK 465 ALA D 125 REMARK 465 ALA D 126 REMARK 465 SER D 151 REMARK 465 ALA D 152 REMARK 465 GLN D 168 REMARK 465 LEU D 169 REMARK 465 SER D 170 REMARK 465 GLU D 171 REMARK 465 ILE D 172 REMARK 465 SER D 173 REMARK 465 MET D 174 REMARK 465 ASP D 175 REMARK 465 ASN D 176 REMARK 465 SER D 177 REMARK 465 PRO D 178 REMARK 465 ASN D 179 REMARK 465 LEU D 180 REMARK 465 ALA D 181 REMARK 465 TRP D 182 REMARK 465 ASN D 192 REMARK 465 SER D 193 REMARK 465 ALA D 194 REMARK 465 VAL D 195 REMARK 465 LYS D 196 REMARK 465 LEU D 197 REMARK 465 GLN D 198 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 LYS D 127 CG CD CE NZ 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 N LYS D 127 O ALA D 188 2.16 REMARK 500 OG1 THR A 120 O TYR A 122 2.18 REMARK 500 OH TYR A 122 OE1 GLU A 144 2.18 REMARK 500 O VAL A 174 N ASN A 177 2.19 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 PHE A 48 -164.81 -126.12 REMARK 500 CYS A 152 -167.02 -162.92 REMARK 500 VAL A 174 -71.37 -64.35 REMARK 500 TYR A 175 -34.14 -31.00 REMARK 500 ASP A 218 64.04 60.30 REMARK 500 ARG A 249 -51.46 67.76 REMARK 500 ALA A 250 -21.00 59.95 REMARK 500 SER A 397 114.37 -161.04 REMARK 500 ALA A 400 -144.36 -137.31 REMARK 500 LEU A 401 -2.22 72.89 REMARK 500 TYR A 458 66.62 -68.53 REMARK 500 PRO A 505 45.77 -89.68 REMARK 500 SER A 607 -98.55 48.86 REMARK 500 ASP A 608 43.67 -153.89 REMARK 500 ASN A 611 77.26 -114.90 REMARK 500 ARG A 733 -103.97 -126.70 REMARK 500 ASP A 760 -4.38 73.21 REMARK 500 ASP A 846 -0.12 76.20 REMARK 500 THR C 46 -60.34 -94.93 REMARK 500 VAL D 160 -73.91 -120.39 REMARK 500 ASP D 161 -174.66 176.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 295 ND1 REMARK 620 2 CYS A 301 SG 92.8 REMARK 620 3 CYS A 306 SG 112.8 144.8 REMARK 620 4 CYS A 310 SG 95.2 91.7 108.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 487 SG REMARK 620 2 HIS A 642 ND1 116.2 REMARK 620 3 CYS A 645 SG 93.3 70.0 REMARK 620 4 CYS A 646 SG 100.8 139.4 92.9 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-30226 RELATED DB: EMDB REMARK 900 STRUCTURE OF THE RNA-DEPENDENT RNA POLYMERASE FROM SARS-COV-2 DBREF 7BW4 A 10 932 UNP P0DTD1 R1AB_SARS2 4402 5324 DBREF 7BW4 B 1 198 UNP P0DTD1 R1AB_SARS2 3943 4140 DBREF 7BW4 C 1 83 UNP P0DTD1 R1AB_SARS2 3860 3942 DBREF 7BW4 D 1 198 UNP P0DTD1 R1AB_SARS2 3943 4140 SEQRES 1 A 923 ARG VAL CYS GLY VAL SER ALA ALA ARG LEU THR PRO CYS SEQRES 2 A 923 GLY THR GLY THR SER THR ASP VAL VAL TYR ARG ALA PHE SEQRES 3 A 923 ASP ILE TYR ASN ASP LYS VAL ALA GLY PHE ALA LYS PHE SEQRES 4 A 923 LEU LYS THR ASN CYS CYS ARG PHE GLN GLU LYS ASP GLU SEQRES 5 A 923 ASP ASP ASN LEU ILE ASP SER TYR PHE VAL VAL LYS ARG SEQRES 6 A 923 HIS THR PHE SER ASN TYR GLN HIS GLU GLU THR ILE TYR SEQRES 7 A 923 ASN LEU LEU LYS ASP CYS PRO ALA VAL ALA LYS HIS ASP SEQRES 8 A 923 PHE PHE LYS PHE ARG ILE ASP GLY ASP MET VAL PRO HIS SEQRES 9 A 923 ILE SER ARG GLN ARG LEU THR LYS TYR THR MET ALA ASP SEQRES 10 A 923 LEU VAL TYR ALA LEU ARG HIS PHE ASP GLU GLY ASN CYS SEQRES 11 A 923 ASP THR LEU LYS GLU ILE LEU VAL THR TYR ASN CYS CYS SEQRES 12 A 923 ASP ASP ASP TYR PHE ASN LYS LYS ASP TRP TYR ASP PHE SEQRES 13 A 923 VAL GLU ASN PRO ASP ILE LEU ARG VAL TYR ALA ASN LEU SEQRES 14 A 923 GLY GLU ARG VAL ARG GLN ALA LEU LEU LYS THR VAL GLN SEQRES 15 A 923 PHE CYS ASP ALA MET ARG ASN ALA GLY ILE VAL GLY VAL SEQRES 16 A 923 LEU THR LEU ASP ASN GLN ASP LEU ASN GLY ASN TRP TYR SEQRES 17 A 923 ASP PHE GLY ASP PHE ILE GLN THR THR PRO GLY SER GLY SEQRES 18 A 923 VAL PRO VAL VAL ASP SER TYR TYR SER LEU LEU MET PRO SEQRES 19 A 923 ILE LEU THR LEU THR ARG ALA LEU THR ALA GLU SER HIS SEQRES 20 A 923 VAL ASP THR ASP LEU THR LYS PRO TYR ILE LYS TRP ASP SEQRES 21 A 923 LEU LEU LYS TYR ASP PHE THR GLU GLU ARG LEU LYS LEU SEQRES 22 A 923 PHE ASP ARG TYR PHE LYS TYR TRP ASP GLN THR TYR HIS SEQRES 23 A 923 PRO ASN CYS VAL ASN CYS LEU ASP ASP ARG CYS ILE LEU SEQRES 24 A 923 HIS CYS ALA ASN PHE ASN VAL LEU PHE SER THR VAL PHE SEQRES 25 A 923 PRO PRO THR SER PHE GLY PRO LEU VAL ARG LYS ILE PHE SEQRES 26 A 923 VAL ASP GLY VAL PRO PHE VAL VAL SER THR GLY TYR HIS SEQRES 27 A 923 PHE ARG GLU LEU GLY VAL VAL HIS ASN GLN ASP VAL ASN SEQRES 28 A 923 LEU HIS SER SER ARG LEU SER PHE LYS GLU LEU LEU VAL SEQRES 29 A 923 TYR ALA ALA ASP PRO ALA MET HIS ALA ALA SER GLY ASN SEQRES 30 A 923 LEU LEU LEU ASP LYS ARG THR THR CYS PHE SER VAL ALA SEQRES 31 A 923 ALA LEU THR ASN ASN VAL ALA PHE GLN THR VAL LYS PRO SEQRES 32 A 923 GLY ASN PHE ASN LYS ASP PHE TYR ASP PHE ALA VAL SER SEQRES 33 A 923 LYS GLY PHE PHE LYS GLU GLY SER SER VAL GLU LEU LYS SEQRES 34 A 923 HIS PHE PHE PHE ALA GLN ASP GLY ASN ALA ALA ILE SER SEQRES 35 A 923 ASP TYR ASP TYR TYR ARG TYR ASN LEU PRO THR MET CYS SEQRES 36 A 923 ASP ILE ARG GLN LEU LEU PHE VAL VAL GLU VAL VAL ASP SEQRES 37 A 923 LYS TYR PHE ASP CYS TYR ASP GLY GLY CYS ILE ASN ALA SEQRES 38 A 923 ASN GLN VAL ILE VAL ASN ASN LEU ASP LYS SER ALA GLY SEQRES 39 A 923 PHE PRO PHE ASN LYS TRP GLY LYS ALA ARG LEU TYR TYR SEQRES 40 A 923 ASP SER MET SER TYR GLU ASP GLN ASP ALA LEU PHE ALA SEQRES 41 A 923 TYR THR LYS ARG ASN VAL ILE PRO THR ILE THR GLN MET SEQRES 42 A 923 ASN LEU LYS TYR ALA ILE SER ALA LYS ASN ARG ALA ARG SEQRES 43 A 923 THR VAL ALA GLY VAL SER ILE CYS SER THR MET THR ASN SEQRES 44 A 923 ARG GLN PHE HIS GLN LYS LEU LEU LYS SER ILE ALA ALA SEQRES 45 A 923 THR ARG GLY ALA THR VAL VAL ILE GLY THR SER LYS PHE SEQRES 46 A 923 TYR GLY GLY TRP HIS ASN MET LEU LYS THR VAL TYR SER SEQRES 47 A 923 ASP VAL GLU ASN PRO HIS LEU MET GLY TRP ASP TYR PRO SEQRES 48 A 923 LYS CYS ASP ARG ALA MET PRO ASN MET LEU ARG ILE MET SEQRES 49 A 923 ALA SER LEU VAL LEU ALA ARG LYS HIS THR THR CYS CYS SEQRES 50 A 923 SER LEU SER HIS ARG PHE TYR ARG LEU ALA ASN GLU CYS SEQRES 51 A 923 ALA GLN VAL LEU SER GLU MET VAL MET CYS GLY GLY SER SEQRES 52 A 923 LEU TYR VAL LYS PRO GLY GLY THR SER SER GLY ASP ALA SEQRES 53 A 923 THR THR ALA TYR ALA ASN SER VAL PHE ASN ILE CYS GLN SEQRES 54 A 923 ALA VAL THR ALA ASN VAL ASN ALA LEU LEU SER THR ASP SEQRES 55 A 923 GLY ASN LYS ILE ALA ASP LYS TYR VAL ARG ASN LEU GLN SEQRES 56 A 923 HIS ARG LEU TYR GLU CYS LEU TYR ARG ASN ARG ASP VAL SEQRES 57 A 923 ASP THR ASP PHE VAL ASN GLU PHE TYR ALA TYR LEU ARG SEQRES 58 A 923 LYS HIS PHE SER MET MET ILE LEU SER ASP ASP ALA VAL SEQRES 59 A 923 VAL CYS PHE ASN SER THR TYR ALA SER GLN GLY LEU VAL SEQRES 60 A 923 ALA SER ILE LYS ASN PHE LYS SER VAL LEU TYR TYR GLN SEQRES 61 A 923 ASN ASN VAL PHE MET SER GLU ALA LYS CYS TRP THR GLU SEQRES 62 A 923 THR ASP LEU THR LYS GLY PRO HIS GLU PHE CYS SER GLN SEQRES 63 A 923 HIS THR MET LEU VAL LYS GLN GLY ASP ASP TYR VAL TYR SEQRES 64 A 923 LEU PRO TYR PRO ASP PRO SER ARG ILE LEU GLY ALA GLY SEQRES 65 A 923 CYS PHE VAL ASP ASP ILE VAL LYS THR ASP GLY THR LEU SEQRES 66 A 923 MET ILE GLU ARG PHE VAL SER LEU ALA ILE ASP ALA TYR SEQRES 67 A 923 PRO LEU THR LYS HIS PRO ASN GLN GLU TYR ALA ASP VAL SEQRES 68 A 923 PHE HIS LEU TYR LEU GLN TYR ILE ARG LYS LEU HIS ASP SEQRES 69 A 923 GLU LEU THR GLY HIS MET LEU ASP MET TYR SER VAL MET SEQRES 70 A 923 LEU THR ASN ASP ASN THR SER ARG TYR TRP GLU PRO GLU SEQRES 71 A 923 PHE TYR GLU ALA MET TYR THR PRO HIS THR VAL LEU GLN SEQRES 1 B 198 ALA ILE ALA SER GLU PHE SER SER LEU PRO SER TYR ALA SEQRES 2 B 198 ALA PHE ALA THR ALA GLN GLU ALA TYR GLU GLN ALA VAL SEQRES 3 B 198 ALA ASN GLY ASP SER GLU VAL VAL LEU LYS LYS LEU LYS SEQRES 4 B 198 LYS SER LEU ASN VAL ALA LYS SER GLU PHE ASP ARG ASP SEQRES 5 B 198 ALA ALA MET GLN ARG LYS LEU GLU LYS MET ALA ASP GLN SEQRES 6 B 198 ALA MET THR GLN MET TYR LYS GLN ALA ARG SER GLU ASP SEQRES 7 B 198 LYS ARG ALA LYS VAL THR SER ALA MET GLN THR MET LEU SEQRES 8 B 198 PHE THR MET LEU ARG LYS LEU ASP ASN ASP ALA LEU ASN SEQRES 9 B 198 ASN ILE ILE ASN ASN ALA ARG ASP GLY CYS VAL PRO LEU SEQRES 10 B 198 ASN ILE ILE PRO LEU THR THR ALA ALA LYS LEU MET VAL SEQRES 11 B 198 VAL ILE PRO ASP TYR ASN THR TYR LYS ASN THR CYS ASP SEQRES 12 B 198 GLY THR THR PHE THR TYR ALA SER ALA LEU TRP GLU ILE SEQRES 13 B 198 GLN GLN VAL VAL ASP ALA ASP SER LYS ILE VAL GLN LEU SEQRES 14 B 198 SER GLU ILE SER MET ASP ASN SER PRO ASN LEU ALA TRP SEQRES 15 B 198 PRO LEU ILE VAL THR ALA LEU ARG ALA ASN SER ALA VAL SEQRES 16 B 198 LYS LEU GLN SEQRES 1 C 83 SER LYS MET SER ASP VAL LYS CYS THR SER VAL VAL LEU SEQRES 2 C 83 LEU SER VAL LEU GLN GLN LEU ARG VAL GLU SER SER SER SEQRES 3 C 83 LYS LEU TRP ALA GLN CYS VAL GLN LEU HIS ASN ASP ILE SEQRES 4 C 83 LEU LEU ALA LYS ASP THR THR GLU ALA PHE GLU LYS MET SEQRES 5 C 83 VAL SER LEU LEU SER VAL LEU LEU SER MET GLN GLY ALA SEQRES 6 C 83 VAL ASP ILE ASN LYS LEU CYS GLU GLU MET LEU ASP ASN SEQRES 7 C 83 ARG ALA THR LEU GLN SEQRES 1 D 198 ALA ILE ALA SER GLU PHE SER SER LEU PRO SER TYR ALA SEQRES 2 D 198 ALA PHE ALA THR ALA GLN GLU ALA TYR GLU GLN ALA VAL SEQRES 3 D 198 ALA ASN GLY ASP SER GLU VAL VAL LEU LYS LYS LEU LYS SEQRES 4 D 198 LYS SER LEU ASN VAL ALA LYS SER GLU PHE ASP ARG ASP SEQRES 5 D 198 ALA ALA MET GLN ARG LYS LEU GLU LYS MET ALA ASP GLN SEQRES 6 D 198 ALA MET THR GLN MET TYR LYS GLN ALA ARG SER GLU ASP SEQRES 7 D 198 LYS ARG ALA LYS VAL THR SER ALA MET GLN THR MET LEU SEQRES 8 D 198 PHE THR MET LEU ARG LYS LEU ASP ASN ASP ALA LEU ASN SEQRES 9 D 198 ASN ILE ILE ASN ASN ALA ARG ASP GLY CYS VAL PRO LEU SEQRES 10 D 198 ASN ILE ILE PRO LEU THR THR ALA ALA LYS LEU MET VAL SEQRES 11 D 198 VAL ILE PRO ASP TYR ASN THR TYR LYS ASN THR CYS ASP SEQRES 12 D 198 GLY THR THR PHE THR TYR ALA SER ALA LEU TRP GLU ILE SEQRES 13 D 198 GLN GLN VAL VAL ASP ALA ASP SER LYS ILE VAL GLN LEU SEQRES 14 D 198 SER GLU ILE SER MET ASP ASN SER PRO ASN LEU ALA TRP SEQRES 15 D 198 PRO LEU ILE VAL THR ALA LEU ARG ALA ASN SER ALA VAL SEQRES 16 D 198 LYS LEU GLN HET ZN A1001 1 HET ZN A1002 1 HETNAM ZN ZINC ION FORMUL 5 ZN 2(ZN 2+) HELIX 1 AA1 THR A 123 HIS A 133 1 11 HELIX 2 AA2 CYS A 139 TYR A 149 1 11 HELIX 3 AA3 ASP A 153 LYS A 159 1 7 HELIX 4 AA4 ILE A 171 LEU A 187 1 17 HELIX 5 AA5 THR A 189 ARG A 197 1 9 HELIX 6 AA6 THR A 206 GLN A 210 5 5 HELIX 7 AA7 VAL A 234 MET A 242 1 9 HELIX 8 AA8 PRO A 243 THR A 246 5 4 HELIX 9 AA9 ALA A 250 SER A 255 1 6 HELIX 10 AB1 PHE A 275 PHE A 287 1 13 HELIX 11 AB2 ASN A 297 CYS A 301 5 5 HELIX 12 AB3 ASP A 303 THR A 319 1 17 HELIX 13 AB4 SER A 367 ASP A 377 1 11 HELIX 14 AB5 PRO A 378 SER A 384 1 7 HELIX 15 AB6 ASN A 416 LYS A 426 1 11 HELIX 16 AB7 GLY A 446 TYR A 458 1 13 HELIX 17 AB8 ILE A 466 PHE A 480 1 15 HELIX 18 AB9 LYS A 511 MET A 519 1 9 HELIX 19 AC1 SER A 520 LYS A 532 1 13 HELIX 20 AC2 SER A 561 ALA A 581 1 21 HELIX 21 AC3 GLY A 596 SER A 607 1 12 HELIX 22 AC4 LYS A 621 MET A 626 1 6 HELIX 23 AC5 PRO A 627 LYS A 641 1 15 HELIX 24 AC6 SER A 647 LEU A 663 1 17 HELIX 25 AC7 ASP A 684 SER A 709 1 26 HELIX 26 AC8 LYS A 718 ARG A 733 1 16 HELIX 27 AC9 ASP A 738 HIS A 752 1 15 HELIX 28 AD1 SER A 768 GLY A 774 1 7 HELIX 29 AD2 SER A 778 ASN A 791 1 14 HELIX 30 AD3 SER A 795 CYS A 799 5 5 HELIX 31 AD4 ASP A 833 CYS A 842 1 10 HELIX 32 AD5 ASP A 851 ALA A 866 1 16 HELIX 33 AD6 TYR A 867 HIS A 872 5 6 HELIX 34 AD7 ASN A 874 LEU A 895 1 22 HELIX 35 AD8 PRO A 918 ALA A 923 1 6 HELIX 36 AD9 MET A 924 THR A 926 5 3 HELIX 37 AE1 LYS B 79 LYS B 97 1 19 HELIX 38 AE2 ASP B 101 ASN B 109 1 9 HELIX 39 AE3 ILE B 119 THR B 124 1 6 HELIX 40 AE4 ASP B 134 CYS B 142 1 9 HELIX 41 AE5 GLN B 168 ILE B 172 5 5 HELIX 42 AE6 ASN B 176 LEU B 180 5 5 HELIX 43 AE7 MET C 3 LEU C 20 1 18 HELIX 44 AE8 ARG C 21 SER C 24 5 4 HELIX 45 AE9 SER C 25 LEU C 40 1 16 HELIX 46 AF1 THR C 46 MET C 62 1 17 HELIX 47 AF2 SER D 85 ASP D 99 1 15 HELIX 48 AF3 ASN D 100 GLY D 113 1 14 HELIX 49 AF4 ASP D 134 THR D 141 1 8 SHEET 1 AA1 2 TYR A 32 TYR A 38 0 SHEET 2 AA1 2 ALA A 43 LEU A 49 -1 O ALA A 46 N PHE A 35 SHEET 1 AA2 3 ILE A 223 GLN A 224 0 SHEET 2 AA2 3 ILE A 201 VAL A 204 -1 N VAL A 202 O ILE A 223 SHEET 3 AA2 3 VAL A 231 VAL A 233 1 O VAL A 233 N GLY A 203 SHEET 1 AA3 4 VAL A 353 HIS A 355 0 SHEET 2 AA3 4 VAL A 338 HIS A 347 -1 N TYR A 346 O VAL A 354 SHEET 3 AA3 4 GLY A 327 VAL A 335 -1 N ILE A 333 O PHE A 340 SHEET 4 AA3 4 VAL B 115 PRO B 116 -1 O VAL B 115 N VAL A 330 SHEET 1 AA4 5 LEU A 387 ASP A 390 0 SHEET 2 AA4 5 LYS B 127 ILE B 132 1 O MET B 129 N LEU A 389 SHEET 3 AA4 5 LEU B 184 ALA B 191 -1 O VAL B 186 N VAL B 130 SHEET 4 AA4 5 ALA B 152 VAL B 160 -1 N VAL B 160 O ILE B 185 SHEET 5 AA4 5 THR B 146 TYR B 149 -1 N PHE B 147 O TRP B 154 SHEET 1 AA5 2 ASN A 414 PHE A 415 0 SHEET 2 AA5 2 PHE A 843 VAL A 844 -1 O VAL A 844 N ASN A 414 SHEET 1 AA6 4 THR A 556 GLY A 559 0 SHEET 2 AA6 4 ILE A 539 LEU A 544 -1 N ASN A 543 O VAL A 557 SHEET 3 AA6 4 MET A 666 MET A 668 1 O MET A 668 N THR A 540 SHEET 4 AA6 4 LEU A 673 VAL A 675 -1 O TYR A 674 N VAL A 667 SHEET 1 AA7 4 PHE A 753 LEU A 758 0 SHEET 2 AA7 4 ASP A 761 ASN A 767 -1 O CYS A 765 N SER A 754 SHEET 3 AA7 4 PRO A 612 MET A 615 -1 N MET A 615 O VAL A 764 SHEET 4 AA7 4 THR A 801 GLU A 802 -1 O GLU A 802 N LEU A 614 SHEET 1 AA8 2 HIS A 816 LYS A 821 0 SHEET 2 AA8 2 TYR A 826 TYR A 831 -1 O TYR A 831 N HIS A 816 SHEET 1 AA9 4 VAL D 115 PRO D 116 0 SHEET 2 AA9 4 LEU D 128 VAL D 131 -1 O VAL D 131 N VAL D 115 SHEET 3 AA9 4 ILE D 185 ARG D 190 -1 O ALA D 188 N LEU D 128 SHEET 4 AA9 4 TRP D 154 GLU D 155 -1 N GLU D 155 O LEU D 189 SHEET 1 AB1 2 CYS D 142 ASP D 143 0 SHEET 2 AB1 2 THR D 146 PHE D 147 -1 O THR D 146 N ASP D 143 LINK ND1 HIS A 295 ZN ZN A1001 1555 1555 2.55 LINK SG CYS A 301 ZN ZN A1001 1555 1555 2.37 LINK SG CYS A 306 ZN ZN A1001 1555 1555 2.43 LINK SG CYS A 310 ZN ZN A1001 1555 1555 2.47 LINK SG CYS A 487 ZN ZN A1002 1555 1555 2.38 LINK ND1 HIS A 642 ZN ZN A1002 1555 1555 2.07 LINK SG CYS A 645 ZN ZN A1002 1555 1555 2.48 LINK SG CYS A 646 ZN ZN A1002 1555 1555 2.42 CISPEP 1 PHE A 504 PRO A 505 0 -10.40 CISPEP 2 TRP B 182 PRO B 183 0 -1.36 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000