2025-07-02 REL PDBj INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin em_software _em_admin.last_update _em_software.name STRUCTURE_SUMMARY chem_comp_atom chem_comp_bond em_admin pdbx_entry_details pdbx_modification_feature _em_admin.last_update _pdbx_entry_details.has_protein_modification DATA_COLLECTION em_admin em_software _em_admin.last_update _em_software.name PDBj PDBj 2022-02-24 2022-07-06 2022-07-06 2025-07-02 Chinese Academy of Sciences YSBR-010 China The complex structure of Omicron BA.1 RBD with BD604, S309,and S304 Huang M Xie YF antibody viral protein complex, VIRAL PROTEIN, VIRAL PROTEIN-IMMUNE SYSTEM complex Huang M Wu L Zheng A Xie Y He Q Rong X Han P Du P Han P Zhang Z Zhao R Jia Y Li L Bai B Hu Z Hu S Niu S Hu Y Liu H Liu B Cui K Li W Zhao X Liu K Qi J Wang Q Gao GF Atlas of currently available human neutralizing antibodies against SARS-CoV-2 and escape by Omicron sub-variants BA.1/BA.1.1/BA.2/BA.3. Immunity US 55 1501 1514.e3 2022 35777362 doi:10.1016/j.immuni.2022.06.005 1074-7613 2048 IUNIEH 7x1m FULLOVERLAP BD604 Fab, S309 Fab and S304 Fab complex with Omicron BA.1 RBD BD604 Fab, S309 Fab and S304 Fab complex with Omicron BA.1 RBD 0 1 2 3 4 5 6 7 BD604 Fab, S309 Fab and S304 Fab 1 1 2 3 4 5 6 Homo sapiens Omicron BA.1 RBD 1 7 Severe acute respiratory syndrome coronavirus 2 S309 Fab heavy chain Homo sapiens 0.024573471 1 Homo sapiens LEVO QVQLVQSGAEVKKPGASVKVSCKASGYPFTSYGISWVRQAPGQGLEWMGWISTYNGNTNYAQKFQGRVTMTTDTSTTTGY MELRRLRSDDTAVYYCARDYTRGAWFGESLIGGFDNWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYF PEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC S309 Fab light chain Homo sapiens 0.023204697 1 Homo sapiens LEVO EIVLTQSPGTLSLSPGERATLSCRASQTVSSTSLAWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGTDFTLTISRLE PEDFAVYYCQQHDTSLTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQ ESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC BD-604 Fab heavy chain Homo sapiens 0.023352223000000002 1 Homo sapiens LEVO EVQLVESGGGLIQPGGSLRLSCAASGIIVSSNYMTWVRQAPGKGLEWVSVIYSGGSTFYADSVKGRFTISRDNSKNTLYL QMSSLRAEDTAVYYCARDLGPYGMDVWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNS GALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDK BD-604 Fab light chain Homo sapiens 0.023304783 1 Homo sapiens LEVO DIQLTQSPSFLSASVGDRVTITCRASQGISSDLAWYQQKPGKAPNLLIYAASTLQSGVPSRFSGSGSGTEFTLTISSLQP EDFATYYCQQLNSDLYTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQ ESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC S304 Fab haavy chain Homo sapiens 0.023729388999999997 1 Homo sapiens LEVO EVQLVESGGGLVQPGGSLRLSCAASGFTFSSYDMHWVRQTTGKGLEWVSTIGTAGDTYYPDSVKGRFTISREDAKNSLYL QMNSLRAGDTAVYYCARGDSSGYYYYFDYWGQGTLLTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVS WNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC S304 Fab light chain Homo sapiens 0.023369947 1 Homo sapiens LEVO DIQMTQSPSSLSAAVGDRVTITCRASQSIGSYLNWYQQKPGKAPKLLIYAASSLQSGVPSRFSGSGSGTDFTLTISSLQP EDFAIYYCQQSYVSPTYTFGPGTKVDIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNS QESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC Spike protein S1 Severe acute respiratory syndrome coronavirus 2 0.023775981999999998 1 Homo sapiens LEVO TNLCPFDEVFNATRFASVYAWNRKRISNCVADYSVLYNLAPFFTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAP GQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKVSGNYNYLYRLFRKSNLKPFERDISTEIYQAGNKPCNGVAGFNCYFPL RSYSFRPTYGVGHQPYRVVVLSFELLHAPATVCGPKKSTNLVKNKCVNF P0DTC2 singleParticle particle 8.0 ETHANE FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 1.0 2.0 GATAN K3 (6k x 4k) 60.0 1 PHASE FLIPPING AND AMPLITUDE CORRECTION 2.74 FSC 0.143 CUT-OFF 553923 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD emd_32944.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 306.0 306.0 306.0 90.0 90.0 90.0 X Y Z -2.214719 3.3856153 0.000075059 0.0790104 0.85 0.85 0.85 0.7 AUTHOR