Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3969 |
| PDBID: | 7KMG |
| Chains: | AB_C |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 2.16 |
| Reference: | 10.1126/scitranslmed.abf1906 |
| Antibody | |
| Antibody: | LY-CoV555 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | Bamlanivimab(Approved) |
| Antigen | |
| Antigen: | SARS-CoV-2 Spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >7KMG_A|Chain A, D|LY-CoV555 Fab heavy chain|Homo sapiens (9606) QVQLVQSGAEVKKPGSSVKVSCKASGGTFSNYAISWVRQAPGQGLEWMGRIIPILGIANYAQKFQGRVTITADKSTSTAYMELSSLRSEDTAVYYCARGYYEARHYYYYYAMDVWGQGTAVTVSSASTKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTKTYTCNVDHKPSNTKVDKRVHHHHHH |
Light Chain: B
Mutation: NULL
| >7KMG_B|Chain B, E|LY-CoV555 Fab light chain|Homo sapiens (9606) DIQMTQSPSSLSASVGDRVTITCRASQSISSYLSWYQQKPGKAPKLLIYAASSLQSGVPSRFSGSGSGTDFTLTITSLQPEDFATYYCQQSYSTPRTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTQGTTSVTKSFNRGEC |
Antigen
Chain: C
Mutation: NULL
| >7KMG_C|Chain C, F|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) FPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPHHHHHH |
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 A: SER30 ASN31 TRP47 ARG50 ILE52 ILE54 LEU55 ILE57 ASN59 TYR60 TYR101 GLU102 ALA103 ARG104 TYR110 B: SER30 TYR32 SER91 TYR92 SER93 THR94 ARG96 C: TYR351 TYR449 LEU452 LEU455 PHE456 THR470 ILE472 ASN481 GLY482 VAL483 GLU484 GLY485 PHE486 TYR489 PHE490 LEU492 GLN493 SER494 |
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)
