Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4262 |
| PDBID: | 7M6D |
| Chains: | HL_C |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 3.10 |
| Reference: | 10.1016/j.cell.2021.04.032 |
| Antibody | |
| Antibody: | BG4-25 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2; P0DTC2; |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7M6D_H|Chain D[auth H]|BG4-25 Fab Heavy Chain|Homo sapiens (9606) EVQLVESGGGLIQPGGSLRLSCAASGITVVRNYMTWVRQAPGKGLEWVSVIYSGGTTYYADSVKGRFTISRDNSKNTMYLQMNSLRAEDTAIYYCARDLEVVGAMDVWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKT |
Light Chain: L
Mutation: NULL
| >7M6D_L|Chain E[auth L]|BG4-25 Fab Light Chain|Homo sapiens (9606) EIVLTQSPGTLSLSPGERATLSCRASQSVPSSYLAWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYGSPMYTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: C
Mutation: NULL
| >7M6D_C|Chain C|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) RFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTNLHHHHHH |
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)
| Chain residues position delta_SASA
: residuesposition H: VAL2 GLY26 ILE27 THR28 VAL30 ARG31 ASN32 TYR33 TYR52 SER53 GLY54 THR56 TYR58 ARG94 LEU96 GLU97 VAL98 VAL99 ASP101 VAL102 L: ILE2 SER27 VAL28 PRO29 SER31 TYR32 GLY92 SER93 PRO94 C: ARG403 ARG408 THR415 GLY416 LYS417 ASP420 TYR421 TYR453 LEU455 PHE456 ARG457 LYS458 SER459 ASN460 TYR473 GLN474 ALA475 GLY476 SER477 PHE486 ASN487 TYR489 GLN493 SER494 TYR495 GLN498 THR500 ASN501 GLY502 TYR505 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
