Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5646 |
| PDBID: | 7Y0O |
| Chains: | HL_A |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Homo sapiens, Vicugna pacos |
| Method: | EM |
| Resolution (Å): | 4.40 |
| Reference: | Not available or To be published |
| Antibody | |
| Antibody: | R15 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 spike glycoprotein |
| Antigen mutation: | No |
| Durg Target: | P0DTC2; P0DTC2; |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7Y0O_H|Chain B[auth H]|heavy chain of R15|Homo sapiens (9606) QMQLVQSGAEVKKPGASVKVSCKASGYTFTSYAISWVRQAPGQGLEWMGRIIPILGIANYAQKFQGRVTITADESTSTAYMELSSRSEDTAVYYCASGAFYYGSGSYPFDYWGQGT |
Light Chain: L
Mutation: NULL
| >7Y0O_L|Chain C[auth L]|light chain of R15|Homo sapiens (9606) GDIQLTQSPSSLSASVGDRVTITCRASQDISDYLNWYQQKPGKAPKLLIYAASSLQSGVPSRFSGSGSGTDFTLTISNLQPEDFATYYCQQSYSAPRTFGQGTKVEIK |
Antigen
Chain: A
Mutation: NULL
| >7Y0O_A|Chain A|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) NLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGP |
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: THR28 PHE29 THR30 SER31 ARG50 ILE52 ILE54 LEU55 ILE57 ALA58 ASN59 TYR60 PHE100 TYR102 GLY103 SER106 L: ASP1 TYR32 TYR92 SER93 ALA94 PRO95 A: TYR351 VAL445 GLY446 TYR449 ASN450 LEU452 THR470 GLU471 ILE472 CYS480 ASN481 VAL483 GLU484 GLY485 PHE486 ASN487 TYR489 PHE490 LEU492 GLN493 SER494 |
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)
