Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5009 |
| PDBID: | 7TE1 |
| Chains: | HL_D |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.50 |
| Reference: | 10.1016/j.celrep.2022.110561 |
| Antibody | |
| Antibody: | Ab17 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 spike glycoprotein S1 |
| Antigen mutation: | No |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7TE1_H|Chain A[auth C], C[auth H]|Ab17 heavy chain|Homo sapiens (9606) EVQLQQSGPELVKPGASVKISCKASGYSFTDYYMNWVKQSPEKSLEWIGEINPNTGGTTYNQKFKAKATLTVDKSSSTAYMQLKSLTSEDSAVYYCARYYGNLYAMDYWGQGTSVTVSSGAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPRDC |
Light Chain: L
Mutation: NULL
| >7TE1_L|Chain B[auth F], D[auth L]|Ab17 light chain|Homo sapiens (9606) DILMTQSPSSMSVSLGDTVSITCHASQGISSNIGWLQQKPGKSFKGLIYHGTNLEDGVPSRFSGSGSGADYSLTISSLESEDFADYYCVQYVQFPYTLGGGTKLEIKRADGAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: D
Mutation: NULL
| >7TE1_D|Chain E[auth D], F[auth E]|Spike protein S1|Homo sapiens (9606) RVQPTESIVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKK |
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: ASP31 TYR33 GLU50 ASN52 ASN54 THR55 THR59 GLN62 TYR99 TYR100 GLY101 ASN102 LEU103 TYR104 L: ASP1 GLN27 GLY28 ILE29 SER30 ASN32 HIS50 ASN53 TYR91 VAL92 GLN93 PHE94 TYR96 D: TYR369 ASN370 ALA372 SER373 PHE374 SER375 THR376 PHE377 LYS378 CYS379 TYR380 GLY381 SER383 PRO384 THR385 LYS386 GLY404 ASP405 VAL407 ARG408 ILE410 ALA411 PRO412 GLY413 GLN414 THR415 ASP427 ASN437 VAL503 TYR508 |
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)
