Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6050 |
| PDBID: | 8DUN |
| Chains: | NO_B |
| Organism: | Macaca fascicularis, Western equine encephalitis virus |
| Method: | EM |
| Resolution (Å): | 5.84 |
| Reference: | 10.1016/j.cell.2023.05.019 |
| Antibody | |
| Antibody: | SKW11 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Western equine encephalitis virus-like particle (VLP) spike glycoprotein E2 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: N
Mutation: NULL
| >8DUN_N|Chain A[auth H], I, K[auth N]|Antibody SKW11 heavy chain|Macaca fascicularis (9541) QVQLQESGPGLVKPSETLSLTCAVSGDSISNNYWTWIRHFPGKGLEWIGRIYGDAGSTDYNPSLKSRVTISMDLSKNQFSLDLTSVTVADTALYYCASRTTVADNWFDVWGPGVLVTVSSASTKGPSVFPLAPSSRSTSESTAALGCLVKDYFPEPVTVSWNSGSLTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYVCNVNHKPSNTKVDKRVEIKTCGGLEVLFQ |
Light Chain: O
Mutation: NULL
| >8DUN_O|Chain B[auth L], J[auth M], L[auth O]|Antibody SKW11 light chain|Macaca fascicularis (9541) DIQMTQSPSSLSASVGDTVTITCRATQSISSLLAWYQYKPGKAPKLLIYQASSLHIGVPSRFSGSGSGTDFTLTISSLQSEDFATYYCQQHDSRPWTFGQGTKVDIKRTVAAPSVFIFPPSEDQVKSGTVSVVCLLNNFYPREASVKWKVDGALKTGNSQESVTEQDSKDNTYSLSSTLTLSSTEYQSHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: B
Mutation: NULL
| >8DUN_B|Chain D[auth B], F[auth G], H[auth K]|Spike glycoprotein E2|Western equine encephalitis virus (11039) PYLGFCPYCRHSAPCFSPIKIENVWDESDDGSIRIQVSAQFGYNQAGTADVTKFRYMSFDHDHDIKEDSMDKIAISTSGPCRRLGHKGYFLLAQCPPGDSVTVSITSGASENSCTVEKKIRRKFVGREEYLFPPVHGKLVKCHVYDHLKETSAGYITMHRPGPHAYKSYLEEASGEVYIKPPSGKNVTYECKCGDYSTGIVSTRTKMNGCTKAKQCIAYKSDQTKWVFNSPDLIRHTDHSVQGKLHIPFRLTPTVCPVPLAHTPTVTKWFKGITLHLTATRPTLLTTRKLGLRADATAEWITGTTSRNFSVGREGLEYVWGNHEPVRVWAQESAPGDPHGWPHEIIIHYYHRHPVYTVIVLCGVALAILVGTASSAACIAKARRDCLTPYALAPNATVPTALAVLCCI |
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)
| N: TYR52 ALA55 SER57 THR58 ASP59 VAL102 ALA103 O: ASP1 THR26 GLN27 SER28 SER30 SER31 LEU32 GLN50 ASP92 SER93 ARG94 B: ASN57 GLN58 ALA59 THR61 ARG173 GLY197 LYS198 ASN199 GLN236 THR237 SER253 VAL254 GLN255 GLY256 LYS257 |
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)
