Complex | |
AACDB_ID: | 4773 |
PDBID: | 7RR0 |
Chains: | BC_A |
Organism: | Severe acute respiratory syndrome coronavirus 2, Homo sapiens |
Method: | EM |
Resolution (Å): | 3.12 |
Reference: | 10.1016/j.celrep.2021.109822 |
Antibody | |
Antibody: | PDI 222 Fv |
Antibody mutation: | No |
INN (Clinical Trial): | |
Antigen | |
Antigen: | SARS-CoV-2 Spike glycoprotein RBD |
Antigen mutation: | No |
Durg Target: | P0DTC2 |
Antibody
Heavy Chain: B
Mutation: NULL
>7RR0_B|Chain B|PDI 222 Fab Heavy Chain|Homo sapiens (9606) QVQLVQSGPEVKKPGTSVKVSCKASGFTFSSSAVQWVRQARGQRLEWIGWIVVGSGNANYAPRFQERVTITRDMSTNTAYMELSSLRSEDTAVYYCAAPNCSRTLCYDGFNMWGQGTMVTV |
Light Chain: C
Mutation: NULL
>7RR0_C|Chain C|PDI 222 Fab Light Chain|Homo sapiens (9606) EIVLTQSPGSLSLSPGERATLSCRASQSVRSSYLGWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSETDFTLTISRLEPEDFAVYYCQQYDSSPWTFGQGTKVEI |
Antigen
Chain: A
Mutation: NULL
>7RR0_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)
B: SER30 SER31 SER32 ALA33 TRP50 VAL52 GLY54 SER55 ASN57 MET74 PRO99 ARG103 THR104 LEU105 CYS106 TYR107 ASP108 GLY109 PHE110 C: ARG30 SER32 TYR33 TYR92 ASP93 TRP97 A: GLY416 LYS417 ASP420 TYR421 TYR453 LEU455 PHE456 LYS458 SER459 ASN460 TYR473 GLN474 ALA475 GLY476 SER477 THR478 PRO479 CYS480 ASN481 VAL483 GLU484 GLY485 PHE486 ASN487 CYS488 TYR489 PHE490 GLN493 |
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)