2024-11-06 REL RCSB RCSB RCSB 2020-09-29 2021-09-29 2021-09-29 2024-11-06 National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) HHSN272201700060C United States National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) 75N93019C00062 United States SARS-CoV-2 Spike RBD in complex with neutralizing Fab 2H04 (local refinement) Errico JM Fremont DH SARS-CoV-2, Neutralizing antibody, Receptor-binding domain, VIRAL PROTEIN-IMMUNE SYSTEM complex, Structural Genomics, Center for Structural Genomics of Infectious Diseases, CSGID Errico JM Zhao H Chen RE Liu Z Case JB Ma M Schmitz AJ Rau MJ Fitzpatrick JAJ Shi PY Diamond MS Whelan SPJ Ellebedy AH Fremont DH Structural mechanism of SARS-CoV-2 neutralization by two murine antibodies targeting the RBD. Cell Rep US 37 109881 109881 2021 34655519 doi:10.1016/j.celrep.2021.109881 2211-1247 EMD-22748 other EM volume EMD-22749 other EM volume EMD-22750 other EM volume EMD-22752 other EM volume EMD-22753 other EM volume 7k9k FULLOVERLAP Complex of SARS-CoV-2 Spike RBD with Fab fragment of monoclonal antibody 2H04 Complex of SARS-CoV-2 Spike RBD with Fab fragment of monoclonal antibody 2H04 0 1 2 3
Fab fragments generated by proteolytic cleavage of recombinantly expressed IgG
 SARS-CoV-2 Spike RBD 1 1 Severe acute respiratory syndrome coronavirus 2 Fab fragment of monoclonal antibody 2H04 1 2 3 Mus musculus Spike protein S1 Severe acute respiratory syndrome coronavirus 2 0.021873496 1 Homo sapiens LEVO TNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAP GQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPL QSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGP P0DTC2 2H04 heavy chain Mus musculus 0.013448783999999998 1 Homo sapiens LEVO EVQLQQSGAELVKPGASVKMSCKASGYTFTSYWITWVKQRPGQGLEWIGDIYPGSGSTKYNEKFRSEATLTVDTSSTTAY MQLSSLTSEDSAVYYCARWDFYGSRTFDYWGQGTTLTVSSA 2H04 light chain Mus musculus 0.011460633 1 Homo sapiens LEVO DIVLTQSPAILSVSPGERVSFSCRASQNIGTIIHWYQQRTNGSPRLLIKYASESVSGIPSRFSGSGSGTDFTLSINSVES EDIADYYCQQSSSWPLTFGAGTKLEL singleParticle particle 1.0 7.5 20.0 C8H18N2O4S HEPES 150.0 NaCl sodium chloride 0.01 NaN3 Sodium Azide ETHANE 100 298 FEI VITROBOT MARK IV
20s wait time 2s blot time.
0.2 7.5 20.0 C8H18N2O4S HEPES 150.0 NaCl sodium chloride 0.01 NaN3 Sodium Azide ETHANE 100 298 FEI VITROBOT MARK IV
20s wait time 2s blot time.
FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.01 1.0 2.5 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN 80.0 80.0 Microscope was modified with a Cs corrector. GIF Bioquantum 20 GATAN K2 SUMMIT (4k x 4k) COUNTING 3838 3710 1-45 9.0 67.0 1 877481 6VXX C1 3.14 FSC 0.143 CUT-OFF cryoSPARC 2.15
C3 expanded particles
304667 MAXIMUM LIKELIHOOD RELION 3.1 MAXIMUM LIKELIHOOD RELION 3.1 RELION 3.1 emd_22751.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 330.0 330.0 330.0 90.0 90.0 90.0 X Y Z -2.5060174 4.808699 0.0023761163 0.070609584 1.1 1.1 1.1 0.4 AUTHOR Locally refined map of SARS-CoV-2 Spike bound by 2H04 Fab emd_22751_msk_1.map emd_22751_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 330.0 330.0 330.0 90.0 90.0 90.0 X Y Z -0.99100846 2.2481616 0.0005286362 0.020426454 1.1 1.1 1.1 AUTHOR Truncated map used for model building and refinement emd_22751_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 330.0 330.0 330.0 90.0 90.0 90.0 X Y Z -1.46837 4.2409105 0.0030499867 0.1325378 1.1 1.1 1.1 AUTHOR Half map A emd_22751_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 330.0 330.0 330.0 90.0 90.0 90.0 X Y Z -1.14812 3.193966 0.0030419491 0.1326831 1.1 1.1 1.1 AUTHOR Half map B