2024-07-10 REL PDBe PDBe PDBe 2020-09-04 2020-09-23 2020-09-23 2024-07-10 Medical Research Council (MRC, United Kingdom) MC_UP_120117 United Kingdom Medical Research Council (MRC, United Kingdom) U105184326 United Kingdom Wellcome Trust 202754/Z/16/Z United Kingdom Medical Research Council (MRC, United Kingdom) MC_UP_A024_1009 United Kingdom Medical Research Council (MRC, United Kingdom) MC_UP_1201/6 United Kingdom Cancer Research UK C576/A14109 United Kingdom Nsp7-Nsp8-Nsp12 SARS-CoV2 RNA-dependent RNA polymerase in complex with template:primer dsRNA and favipiravir-RTP Naydenova K Muir KW RNA-dependent RNA polymerase, Favipiravir, SARS-CoV2, nCovid19, VIRAL PROTEIN Naydenova K Muir KW Wu LF Zhang Z Coscia F Peet MJ Castro-Hartmann P Qian P Sader K Dent K Kimanius D Sutherland JD Lowe J Barford D Russo CJ Structure of the SARS-CoV-2 RNA-dependent RNA polymerase in the presence of favipiravir-RTP. Proc.Natl.Acad.Sci.USA US 118 2021 33526596 doi:10.1073/pnas.2021946118 1091-6490 0040 PNASA6 7aap FULLOVERLAP Nsp7-Nsp8-Nsp12 SARS-CoV2 RNA-directed RNA polymerase in complex with template:primer dsRNA and favipiravir-RTP Nsp7-Nsp8-Nsp12 SARS-CoV2 RNA-directed RNA polymerase in complex with template:primer dsRNA and favipiravir-RTP 0 1 2 3 4 5 Nsp7-Nsp8-Nsp12 SARS-CoV2 RNA-directed RNA polymerase 1 1 2 3 Severe acute respiratory syndrome coronavirus 2 RNA 1 4 5 Severe acute respiratory syndrome coronavirus 2 Non-structural protein 12 Severe acute respiratory syndrome coronavirus 2 0.11052193799999999 1 Trichoplusia ni LEVO SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNY QHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKK DWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDDRCILHCANFNVLFSTV FPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAA LTNNVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGV SICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLAR KHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCW TETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADV FHLYLQYIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQENLYFQSWSHPQFEKGGGSGGGSGGGSW SHPQFEK P0DTD1 3.4.19.12 Non-structural protein 8 Severe acute respiratory syndrome coronavirus 2 0.021903047 2 Trichoplusia ni LEVO AIASEFSSLPSYAAFATAQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKR AKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLNIIPLTTAAKLMVVIPDYNTYKNTCDGTTFTYASALWEIQQVV DADSKIVQLSEISMDNSPNLAWPLIVTALRANSAVKLQ P0DTD1 3.4.19.12 Non-structural protein 7 Severe acute respiratory syndrome coronavirus 2 0.009248804 1 Trichoplusia ni LEVO SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRA TLQ P0DTD1 3.4.19.12 RNA (5'-R(P*UP*UP*AP*AP*GP*UP*UP*AP*U)-3') Severe acute respiratory syndrome coronavirus 2 0.007696575 1 CAGUGCUAUGUGAGAUUAAGUUAU RNA (5'-R(P*UP*UP*CP*AP*UP*AP*AP*CP*UP*UP*AP*A)-3') Severe acute respiratory syndrome coronavirus 2 0.009418569 1 UUUUUCAUAACUUAAUCUCACAUAGCACUG ZINC ION 6.5409e-05 2 ZN MAGNESIUM ION 2.4305e-05 3 MG PYROPHOSPHATE 2- 0.000175959 1 POP [[(2~{R},3~{S},4~{R},5~{R})-5-(3-aminocarbonyl-5-fluoranyl-2-oxidanylidene-pyrazin-1-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate 0.000529157 1 GE6 singleParticle particle 7.5 ETHANE TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 FEI FALCON IV (4k x 4k) 24.72 1
The structure was determined by molecular replacement using 7BV2. Thereafter, the model was manually corrected in Coot and refined in Phenix, using real-space refinement.
 2.5 FSC 0.143 CUT-OFF 40828 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD emd_11692.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 208.0 208.0 208.0 90.0 90.0 90.0 X Y Z -0.047219016 0.11504151 0.00018596314 0.0031760929 0.65 0.65 0.65 0.01 AUTHOR Masked EM density map, sharpened by a B-factor of 20 Angstrom^2, used for model building 7BV2 PDB experimental model REAL emd_11692_msk_1.map emd_11692_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 208.0 208.0 208.0 90.0 90.0 90.0 X Y Z -0.030973442 0.08070789 -0.00000510775 0.0027152672 0.65 0.65 0.65 AUTHOR Unsharpened EM density map emd_11692_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 208.0 208.0 208.0 90.0 90.0 90.0 X Y Z -0.03909911 0.0909632 0.00007858788 0.003564661 0.65 0.65 0.65 AUTHOR EM density half map 1 emd_11692_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 208.0 208.0 208.0 90.0 90.0 90.0 X Y Z -0.040946912 0.10212691 0.00008097247 0.0035808245 0.65 0.65 0.65 AUTHOR EM density half map 2