Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5960 |
| PDBID: | 8DCE |
| Chains: | H_A |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 2.00 |
| Reference: | 10.1126/sciadv.abq8276 |
| Antibody | |
| Antibody: | C144 scFv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 spike glycoprotein RBD SPEEDesign Immunogen 1 |
| Antigen mutation: | Yes |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Chain: H
Mutation: NULL
| >8DCE_H|Chain A[auth H]|C144 scFv|Homo sapiens (9606) ETEVQLVESGGGLIQPGGSLRLSCAASGFTVSNNYMSWVRQAPGKGLEWVSVIYSGGSTYYADSVKGRFTISRDKSKNTLYLQMNRLRAEDTAVYYCAREGEVEGYNDFWSGYSRDRYYFDYWGQGTLVTVSSGGGGSGGGGSGGGGSGGGGSGGGGSQSALTQPASVSGSPGQSITISCTGTSSDVGGYNYVSWYQQHPGKAPKLMIYDVSNRPSGVSNRFSGSKSGNTASLTISGLQAEDEADYYCSSYTSSSTRVFGTGTKVTVLGTHHHHHH |
Antigen
Chain: A
Mutation: T4M/A19P/V33Y/A34Y/N65Q/Y67F/I139T/H190D/A193P
| >8DCE_A|Chain B[auth A]|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) ETGMNLCPFGEVFNATRFPSVYAWNRKRISNCYYDYSVLYNSASFSTFKCYGVSPTKLNDLCFTQVFADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDTSTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLDAPPTVCGTGGGGSKHHHHHH |
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: SER25 GLY26 PHE27 THR28 SER30 ASN31 TYR33 TYR52 SER53 GLY54 SER56 TYR58 LYS73 SER74 ASN76 VAL101 TYR111 SER112 ARG113 ASP114 TYR116 TYR188 TYR190 TYR249 SER253 A: LYS417 TYR449 ASN450 LEU452 TYR453 LEU455 PHE456 VAL483 GLU484 GLY485 PHE486 ASN487 CYS488 TYR489 PHE490 LEU492 GLN493 SER494 GLY496 GLN498 |
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)
