Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5625 |
| PDBID: | 7XSA |
| Chains: | HI_J |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 2.20 |
| Reference: | 10.1038/s41590-023-01449-6 |
| Antibody | |
| Antibody: | P2S-2E9 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 spike glycoprotein RBD |
| Antigen mutation: | Yes |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7XSA_H|Chain A[auth B], D[auth H]|P2S-2E9 Heavy chain|Homo sapiens (9606) QITLKESGPTLVKPTQTLTLTCTFSGFSLSTSGVGVGWIRQPPGKALEWLALIYWDDDKRYSPSLKSRLTITKDTSKNQVVLTMTNMDPVDTATYYCARHRIGYIFDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVE |
Light Chain: I
Mutation: NULL
| >7XSA_I|Chain B[auth C], E[auth I]|P2S-2E9 Light chain|Homo sapiens (9606) QSALTQPASVSGSPGQSITISCTGTSSDVGDFNYVSWYQQHPGKAPKLMIYDVTKRPSGVSNRFSGSKSGNTASLTISGLQAEDEADYCCSSYTTSSISFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: J
Mutation: K126N/E193K/N210Y
| >7XSA_J|Chain C[auth E], F[auth J]|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) MLLVNQSHQGFNKEHTSKMVSAIVLYVLLAAAAHSAFAADPTNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVKGFNCYFPLQSYGFQPTYGVGYQPYRVVVLSFELLHAPATVCGPHHHHHH |
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: SER32 GLY33 TRP49 LEU52 TYR54 TRP55 ASP56 ASP58 ARG60 ARG101 ILE102 GLY103 I: ASP28 VAL29 GLY30 ASP31 PHE32 ASN33 TYR34 TYR93 THR94 THR95 SER96 SER97 ILE98 J: THR345 ASN439 ASN440 LEU441 SER443 LYS444 VAL445 GLY446 GLY447 ASN448 TYR449 ASN450 GLN498 PRO499 THR500 TYR501 GLY502 GLN506 |
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)
