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Entry information

Complex
AACDB_ID: 3591
PDBID: 7DET
Chains: D_C
Organism: Severe acute respiratory syndrome coronavirus 2, Mus musculus
Method: XRD
Resolution (Å): 2.20
Reference: 10.1371/journal.pbio.3001209
Antibody
Antibody: PR961 scFv
Antibody mutation: No
INN (Clinical Trial):
Antigen
Antigen: SARS-CoV-2 Spike glycoprotein RBD
Antigen mutation: No
Durg Target: P0DTC2

Sequence information

Antibody

Chain: D
Mutation: NULL

>7DET_D|Chain B, D|antibody scFv|Mus musculus (10090)
MKFLVNVALVFMVVYISYIYADGSQVQLVQSGAEVKKPGASVKLSCKASGYSFTSYWVNWVRQAPGQGLEWIGMIHPSDSETRLNQKFKDRVTITVDKSTSTAYMELSSLRSEDTAVYYCARADGYEWYFDVWGRGTLVTVSSGGGGSGGGGSGGGGSDIVLTQSPASLAVSPGQRATITCRASESVDSYGNSFMHWYQQKPGQPPKLLIYRASNLESGIPARFSGSGSGTDFTLTINPVEANDVANYYCQQSNEDPWTFGQGTKVEIKAAAHHHHHHHH

Antigen

Chain: C
Mutation: NULL

>7DET_C|Chain A, C|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049)
NLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSAAAHHHHHH

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)

D: THR30 SER31 TYR32 TRP33 HIS52 SER54 ASP55 GLU57 ARG59 ASP100 GLY101 TYR102 GLU103 TRP104 TYR105 SER165 TYR166 ASN168 PHE170 ARG188 SER229 ASN230 GLU231 ASP232 TRP234

C: ASN343 THR345 ARG346 PHE347 ALA348 SER349 ASN354 ASN440 LEU441 ASP442 SER443 LYS444 VAL445 ASN448 ASN450 TYR451 PRO499 THR500

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)

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