2024-11-20 REL PDBj PDBj PDBj 2022-05-30 2022-09-14 2022-09-14 2024-11-20 Not funded RBD in complex with Fab14 Lin JQ Tan YJE Wu B Lescar J Complex, RBD, Fab, PROTEIN BINDING, IMMUNE SYSTEM-VIRAL PROTEIN complex Ku Z Xie X Lin J Gao P Wu B El Sahili A Su H Liu Y Ye X Tan EY Li X Fan X Goh BC Xiong W Boyd H Muruato AE Deng H Xia H Zou J Kalveram BK Menachery VD Zhang N Lescar J Shi PY An Z Engineering SARS-CoV-2 specific cocktail antibodies into a bispecific format improves neutralizing potency and breadth. Nat Commun UK 13 5552 5552 2022 36138032 doi:10.1038/s41467-022-33284-y 2041-1723 7xxl FULLOVERLAP RBD bound to Fab14 RBD bound to Fab14 0 1 2 3
Fab14 was generated by cleaving IgG14 with papain. RBD was obtained by first expressing a MBP-RBD fusion construct, followed by removal of MBP tag using TEV cleavage. A TEV cleavage site was present between MBP and RBD. RBD-Fab14 complex was prepared by mixing both in equal molar ratio, followed by purification via SEC.
 receptor binding domain of wild-type spike 1 3 Severe acute respiratory syndrome coronavirus 2 Fab14 1 1 2 Homo sapiens Fab14 light chain Homo sapiens 0.022518879 1 Homo sapiens LEVO QAVVTQPASVSGSPGQSITISCTGTSSDIGAYNYISWYQQHPGKAPKLIIYEVSNRPSGISYRFSGSKSGNTASLTISGL QAEDEANYYCSSYAGSISFGGGTKVTVLQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGV ETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS Fab14 heavy chain Homo sapiens 0.025583445 1 Homo sapiens LEVO EVQLQQSGPGLVKPSQTLSLTCAISGDSVSSNSAAWNWIRQSPSRGLEWLGRTYYRSKWYNDYAVSVKSRITINPDTSKN QFSLQLNSVTPEDTAVYYCAREEQQLVHDYYYYGMDVWGQGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDY FPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKTH Spike protein S1 Severe acute respiratory syndrome coronavirus 2 0.022819559 1 Homo sapiens LEVO SANITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVR QIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNC YFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTN P0DTC2 2-acetamido-2-deoxy-beta-D-glucopyranose 0.000221208 1 NAG singleParticle particle 0.28 7.2
PBS pH 7.2
 Quantifoil R1.2/1.3 COPPER GLOW DISCHARGE ETHANE 100 277 FEI VITROBOT MARK IV
SEC was used to purify RBD-Fab14 complex prior to grid preparation.
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 1.0 2.0 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Bioquantum 20 GATAN K2 SUMMIT (4k x 4k) COUNTING 1 3410 5.3 45.56
Images were collected in movie-mode: 40 frames per 5.3 seconds.
 1 5334997
auto-picked and extracted in REION, with a box size of 256x256 pixels
 1 C1 7.3 FSC 0.143 CUT-OFF cryoSPARC 117831 NOT APPLICABLE NOT APPLICABLE
Cryosparc autogenerated model based on 2D selected particles
 emd_33506.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 281.6 281.6 281.6 90.0 90.0 90.0 X Y Z -0.6907242 1.1427824 0.00030763148 0.02890662 1.1 1.1 1.1 0.13 AUTHOR main map, without mask, cryosparc sharpened 7WPV A PDB experimental model 7WPV B PDB experimental model 7WPH B PDB experimental model RIGID BODY FIT REAL emd_33506_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 128 128 128 0 0 0 128 128 128 281.6 281.6 281.6 90.0 90.0 90.0 X Y Z -0.9180277 2.3085523 0.0008968231 0.0742741 2.2 2.2 2.2 AUTHOR 3D class density, for illustration purposes emd_33506_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 281.6 281.6 281.6 90.0 90.0 90.0 X Y Z -0.40230188 0.767341 0.00066001667 0.026050791 1.1 1.1 1.1 AUTHOR emd_33506_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 281.6 281.6 281.6 90.0 90.0 90.0 X Y Z -0.4230715 0.86987805 0.0006387158 0.026050966 1.1 1.1 1.1 AUTHOR