Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 226 |
| PDBID: | 2DD8 |
| Chains: | HL_S |
| Organism: | Homo sapiens, Severe acute respiratory syndrome-related coronavirus |
| Method: | XRD |
| Resolution (Å): | 2.30 |
| Reference: | 10.1074/jbc.M600697200 |
| Antibody | |
| Antibody: | m396 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV Spike glycoprotein |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >2DD8_H|Chain A[auth H]|IGG Heavy Chain|Homo sapiens (9606) QVQLQQSGAEVKKPGSSVKVSCKASGGTFSSYTISWVRQAPGQGLEWMGGITPILGIANYAQKFQGRVTITTDESTSTAYMELSSLRSEDTAVYYCARDTVMGGMDVWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTSALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTSPLFVHHHHHHGDYKDDDDKG |
Light Chain: L
Mutation: NULL
| >2DD8_L|Chain B[auth L]|IGG Light Chain|Homo sapiens (9606) SYELTQPPSVSVAPGKTARITCGGNNIGSKSVHWYQQKPGQAPVLVVYDDSDRPSGIPERFSGSNSGNTATLTISRVEAGDEADYYCQVWDSSSDYVFGTGTKVTVLGQPKANPTVTLFPPSSEEFQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: S
Mutation: NULL
| >2DD8_S|Chain C[auth S]|Spike glycoprotein|SARS coronavirus (694009) PNITNLCPFGEVFNATKFPSVYAWERKKISNCVADYSVLYNSTFFSTFKCYGVSATKLNDLCFSNVYADSFVVKGDDVRQIAPGQTGVIADYNYKLPDDFMGCVLAWNTRNIDATSTGNYNYKYRYLRHGKLRPFERDISNVPFSPDGKPCTPPALNCYWPLNDYGFYTTTGIGYQPYRVVVLSFELLNAPATVCGPKLSTD |
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: SER31 TYR32 THR33 GLY50 ILE51 ILE53 LEU54 ILE56 ASN58 TYR59 ASP95 THR96 VAL97 MET98 GLY99 L: ASN27 GLY29 SER30 LYS31 TRP91 ASP92 SER93 SER94 ASP95 TYR96 S: THR359 PHE361 SER362 THR363 LYS365 LYS390 GLY391 ASP392 VAL394 ARG395 ARG426 SER432 TYR436 GLY482 TYR484 THR485 THR486 THR487 GLY488 ILE489 GLY490 TYR491 GLN492 TYR494 |
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)
