2024-10-23 REL RCSB RCSB RCSB 2020-12-16 2021-03-24 2021-03-24 2024-10-23 Other private Jack Ma Foundation China Cryo-EM structure of NTD-directed neutralizing antibody 1-87 in complex with prefusion SARS-CoV-2 spike glycoprotein Cerutti G Shapiro L Neutralizing antibody, SARS-CoV-2, Fusion protein, Spike glycoprotein, Viral protein, NTD, NTD-directed antibody, 1-87, COVID-19, Immune system, Viral protein-Immune system complex Cerutti G Guo Y Zhou T Gorman J Lee M Rapp M Reddem ER Yu J Bahna F Bimela J Huang Y Katsamba PS Liu L Nair MS Rawi R Olia AS Wang P Zhang B Chuang GY Ho DD Sheng Z Kwong PD Shapiro L Potent SARS-CoV-2 neutralizing antibodies directed against spike N-terminal domain target a single supersite. Cell Host Microbe US 29 819 2021 33789084 doi:10.1016/j.chom.2021.03.005 1934-6069 7l2d FULLOVERLAP Prefusion SARS-CoV-2 spike glycoprotein in complex with 1-87 Fab Prefusion SARS-CoV-2 spike glycoprotein in complex with 1-87 Fab 0 1 2 3 Homo sapiens Spike glycoprotein Severe acute respiratory syndrome coronavirus 2 0.142399375 3 Homo sapiens LEVO MFVFLVLLPLVSSQCVNLTTRTQLPPAYTNSFTRGVYYPDKVFRSSVLHSTQDLFLPFFSNVTWFHAIHVSGTNGTKRFD NPVLPFNDGVYFASTEKSNIIRGWIFGTTLDSKTQSLLIVNNATNVVIKVCEFQFCNDPFLGVYYHKNNKSWMESEFRVY SSANNCTFEYVSQPFLMDLEGKQGNFKNLREFVFKNIDGYFKIYSKHTPINLVRDLPQGFSALEPLVDLPIGINITRFQT LLALHRSYLTPGDSSSGWTAGAAAYYVGYLQPRTFLLKYNENGTITDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRV QPTESIVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSF VIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPC NGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTNLVKNKCVNFNFNGLTGTGVLTESNKKFL PFQQFGRDIADTTDAVRDPQTLEILDITPCSFGGVSVITPGTNTSNQVAVLYQDVNCTEVPVAIHADQLTPTWRVYSTGS NVFQTRAGCLIGAEHVNNSYECDIPIGAGICASYQTQTNSPGSASSVASQSIIAYTMSLGAENSVAYSNNSIAIPTNFTI SVTTEILPVSMTKTSVDCTMYICGDSTECSNLLLQYGSFCTQLNRALTGIAVEQDKNTQEVFAQVKQIYKTPPIKDFGGF NFSQILPDPSKPSKRSFIEDLLFNKVTLADAGFIKQYGDCLGDIAARDLICAQKFNGLTVLPPLLTDEMIAQYTSALLAG TITSGWTFGAGAALQIPFAMQMAYRFNGIGVTQNVLYENQKLIANQFNSAIGKIQDSLSSTASALGKLQDVVNQNAQALN TLVKQLSSNFGAISSVLNDILSRLDPPEAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGQSKRV DFCGKGYHLMSFPQSAPHGVVFLHVTYVPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQRNFYEPQIITTDNT FVSGNCDVVIGIVNNTVYDPLQPELDSFKEELDKYFKNHTSPDVDLGDISGINASVVNIQKEIDRLNEVAKNLNESLIDL QELGKYEQGSGYIPEAPRDGQAYVRKDGEWVLLSTFLGRSLEVLFQGPGHHHHHHHHSAWSHPQFEKGGGSGGGGSGGSA WSHPQFEK P0DTC2 1-87 heavy chain Homo sapiens 0.025002057 1 Homo sapiens LEVO QVQLVQSGAEVKKPGASVKVSCKVSGYTLIELSMHWVRQAPGKGLEWMGGFDPEDAETIYAQKFQGRVTMTEDTSTDTAY MELSSLRSEDTAVYYCATGIAVIGPPPSTYYYYGMDVWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDY FPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTH 1-87 light chain Homo sapiens 0.022704978999999997 1 Homo sapiens LEVO QSALTQPASVSGSPGQSITISCTGTSSDVGGYNYVSWYQQHPGKAPKLMIYDVSKRPSGVSNRFSGSKSGNTASLTISGL QAEDEADYYCSSYTSSSTYVFGTGTKVTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVK AGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTEC 2-acetamido-2-deoxy-beta-D-glucopyranose 0.000221208 34 NAG singleParticle particle 4.5 ETHANE FEI TITAN KRIOS OTHER BRIGHT FIELD FIELD EMISSION GUN 300 GATAN K3 BIOQUANTUM (6k x 4k) 42.0 1 C1 3.55 FSC 0.143 CUT-OFF cryoSPARC 62479 MAXIMUM LIKELIHOOD cryoSPARC MAXIMUM LIKELIHOOD cryoSPARC emd_23125.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 390 390 390 0 0 0 390 390 390 417.30002 417.30002 417.30002 90.0 90.0 90.0 X Y Z -0.48226824 0.97879875 -0.00023356407 0.032928273 1.07 1.07 1.07 0.19 AUTHOR Cryo-EM structure of NTD-directed neutralizing antibody 1-87 in complex with prefusion SARS-CoV-2 spike glycoprotein FLEXIBLE FIT emd_23125_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 440 440 440 0 0 0 440 440 440 470.80002 470.80002 470.80002 90.0 90.0 90.0 X Y Z -0.23881076 1.3609637 -0.00043251787 0.017656708 1.07 1.07 1.07 AUTHOR Locally refined map emd_23125_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 390 390 390 0 0 0 390 390 390 417.30002 417.30002 417.30002 90.0 90.0 90.0 X Y Z -0.2505945 0.5813351 -0.00023356407 0.020676732 1.07 1.07 1.07 AUTHOR Unsharpened map emd_23125_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 390 390 390 0 0 0 390 390 390 417.30002 417.30002 417.30002 90.0 90.0 90.0 X Y Z -1.6146783 1.3800275 0.0006620352 0.16950633 1.07 1.07 1.07 AUTHOR Half-map 1 emd_23125_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 390 390 390 0 0 0 390 390 390 417.30002 417.30002 417.30002 90.0 90.0 90.0 X Y Z -1.5014473 1.4038466 0.0006729977 0.16790874 1.07 1.07 1.07 AUTHOR half map 2