LitCovid-sentences  

PMC:7571312 / 128806-132285 JSONTXT 6 Projects

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Id Subject Object Predicate Lexical cue
T704 0-71 Sentence denotes Crystallization/Soak Protocols for SARS1 and SARS2 with 4 (PF-00835231)
T705 73-95 Sentence denotes LJEC2520 + PF-00835231
T706 96-176 Sentence denotes Crystals of PF-00835231 bound to SARS1/CoV-1 DC2 protease via cocrystallization:
T707 177-307 Sentence denotes Freshly prepared SARS1/CoV-1 DC2 protease at 10.00 mg/mL was incubated with a 3-fold molar excess of PF-00835231 for 18 h at 4 °C.
T708 308-465 Sentence denotes The complex was then passed through a 0.45 μM cellulose acetate spin filter and set up for crystallization using an NT-8 crystallization robot (Formulatrix).
T709 466-692 Sentence denotes Using MRC-2 crystallization plates, wells containing 40 μL of 10% w/v PEG 6000, 0.1 M MES pH 6.0, and 10% glycerol were dispensed, and then sitting drops consisting of 0.15 μL protein were set up against a 0.15 μL well buffer.
T710 693-813 Sentence denotes Crystallization plates were incubated at 21 °C, and rectangular crystals measuring 0.2 × 0.25 × 0.15 mm3 grew overnight.
T711 814-946 Sentence denotes Crystals were flash-frozen in liquid nitrogen after being passed through a cryo consisting of a well buffer containing 20% glycerol.
T712 948-970 Sentence denotes LJEC2521 + PF-00835231
T713 971-1054 Sentence denotes Crystals of PF-00835231 bound to SARS2/CoV-2 mature protease via cocrystallization:
T714 1055-1187 Sentence denotes Freshly prepared SARS2/CoV-2 mature protease at 11.3 mg/mL was incubated with a 3-fold molar excess of PF-00835231 for 18 h at 4 °C.
T715 1188-1345 Sentence denotes The complex was then passed through a 0.45 μM cellulose acetate spin filter and set up for crystallization using an NT-8 crystallization robot (Formulatrix).
T716 1346-1582 Sentence denotes Using MRC-2 crystallization plates, wells containing 40 μL of 15% v/v 2-propanol, 0.1 M citric acid pH 5.0, and 10% w/v PEG 10 000 were dispensed, and then sitting drops consisting of 0.3 μL protein and a 0.3 μL well buffer were set up.
T717 1583-1718 Sentence denotes Crystallization plates were incubated at 13 °C, and crystals shaped as rectangular blocks measuring 0.1 × 0.2 × 0.2 mm3 grew overnight.
T718 1719-1851 Sentence denotes Crystals were flash-frozen in liquid nitrogen after being passed through a cryo consisting of a well buffer containing 20% glycerol.
T719 1853-1875 Sentence denotes LJEC2522 + PF-00835231
T720 1876-1946 Sentence denotes Crystals of PF-00835231 bound to SARS2/CoV-2 DC2 protease via soaking:
T721 1947-2143 Sentence denotes Freshly prepared SARS2/CoV-2 DC2 protease at 25.8 mg/mL was passed through a 0.45 mM cellulose acetate spin filter and set up for crystallization using an NT-8 crystallization robot (Formulatrix).
T722 2144-2386 Sentence denotes Using MRC-2 crystallization plates, wells containing 40 mL of 0.2 M potassium sodium tartrate tetrahydrate and 20% w/v PEG 3350 were dispensed, and then sitting drops consisting of 0.3 μL protein were set up in a 1:1 ratio with a well buffer.
T723 2387-2528 Sentence denotes Crystallization plates were incubated at 13 °C, and large crystals shaped as beveled plates measuring 0.35 × 0.2 × 0.025 mm3 grew after 48 h.
T724 2529-2674 Sentence denotes PF-00835231 (in 100% DMSO solution) was introduced to the drop (in situ), at a final concentration of 1 mM, and then incubated at 13 °C for 24 h.
T725 2675-2814 Sentence denotes Soaked crystals were flash-frozen in liquid nitrogen after being passed through a cryo consisting of a well buffer containing 20% glycerol.
T726 2815-2839 Sentence denotes Structure determination.
T727 2840-2989 Sentence denotes X-ray diffraction data were collected at the IMCA-CAT 17-ID beamline of Advanced Photon Source at Argonne National Labs and processed using autoPROC.
T728 2990-3263 Sentence denotes Structure of the SARS CoV main protease in complex with PF-835231 was determined by molecular replacement using the published protein structure (PDBID 1Q2W) as the starting model in program Phaser and refined iteratively using autoBUSTER followed by model building in Coot.
T729 3264-3479 Sentence denotes Structure of the SARS CoV-2 main protease in complex with PF-835231 was determined similarly by rigid body refinement using the SARS CoV main protease structure in complex with the same ligand as the starting model.