Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5107 |
| PDBID: | 7U8E |
| Chains: | HL_A |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.29 |
| Reference: | 10.1016/j.str.2023.11.015 |
| Antibody | |
| Antibody: | Ab246 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7U8E_H|Chain B[auth H]|Antibody Ab246 Fab heavy chain|Homo sapiens (9606) QVQLQESGPGLVKPSETLSLTCSVSGDSIGTYYWSWIRQSPEKGLEWIGYIHHSGKTNYNPSLKSRVTMSVDTSKNQFSLKLTSVTAADTAVYYCARSPIGYCSSTKCYIDKPFDSWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVAA |
Light Chain: L
Mutation: NULL
| >7U8E_L|Chain C[auth L]|Antibody Ab246 Fab light chain|Homo sapiens (9606) QAVLTQPSSLSASPGASASLTCTLRGGINVVNQRLYWYQQKPGSPPRFLLKYKSDSDNFLGSGVPSRFSGSKDASANAGILLISEVQSEDEADYYCMMWHSSAYVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: A
Mutation: NULL
| >7U8E_A|Chain A|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) NITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPGSHHHHHH |
Interaction
1、Solvent accessible surface areas (SASA) were calculated (Naccess V2.1.1) for each residue in antibody and antigen, respectively. The residues with SASA loss in binding of more than 1Å2 were classified as interacting residues.
Interacting residues (ΔSASA based)
| H: GLY26 SER28 ILE29 GLY30 THR31 TYR32 ASN76 ARG94 PRO96 ILE97 GLY98 TYR99 ASP101 L: LEU54 SER56 SER60 A: LYS378 CYS379 TYR380 GLY381 VAL382 SER383 PRO384 THR385 ARG408 PRO412 GLY413 GLN414 THR415 LYS424 PRO426 ASP427 ASP428 PHE429 THR430 PRO463 PHE464 LEU517 LEU518 HIS519 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 5Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 5 Å from any atom.
Interacting residues (Atom distance based)
