Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5965 |
| PDBID: | 8DED |
| Chains: | UV_G |
| Organism: | Western equine encephalitis virus, Homo sapiens, Homo |
| Method: | EM |
| Resolution (Å): | 4.10 |
| Reference: | 10.1016/j.cell.2023.05.019 |
| Antibody | |
| Antibody: | SKW19 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: U
Mutation: NULL
| >8DED_U|Chain G[auth H], I[auth U]|SKW19 Fab heavy chain|Homo sapiens (9606) EVQLVESGGGLAKPGGSLRLSCAASGFTFSSYAMHWVRQAPGKGLEWVSVISSHYSTYYADSVKGRFTISRDNSKNTVSLQVNSLRAEDTAVYYCAKVGRSGYCTASGCNALLFDWFDVWGPGVLVTVSSASTKGPSVFPLAPSSRSTSESTAALGCLVKDYFPEPVTVSWNSGSLTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYVCNVNHKPSNTKVDKRVEIKTCGGLEVLFQ |
Light Chain: V
Mutation: NULL
| >8DED_V|Chain H[auth L], J[auth V]|SKW19 Fab light chain|Homo sapiens (9605) DVVMTQSPLSLPVTPGQPASISCRSSQSLVHSNGNTSLSWYQQKAGHPPRLLIYQVSNRYSGVPDRFSGTGAGTDFTLTISRVETEDVGVYYCGQGAHLPPAFGQGTKVEIKRTVAAPSVFIFPPSEDQVKSGTVSVVCLLNNFYPREASVKWKVDGALKTGNSQESVTEQDSKDNTYSLSSTLTLSSTEYQSHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: G
Mutation: NULL
| >8DED_G|Chain B, D[auth G], F[auth K]|Spike glycoprotein E2|Western equine encephalitis virus (11039) SITDDFTLTSPYLGFCPYCRHSAPCFSPIKIENVWDESDDGSIRIQVSAQFGYNQAGTADVTKFRYMSFDHDHDIKEDSMDKIAISTSGPCRRLGHKGYFLLAQCPPGDSVTVSITSGASENSCTVEKKIRRKFVGREEYLFPPVHGKLVKCHVYDHLKETSAGYITMHRPGPHAYKSYLEEASGEVYIKPPSGKNVTYECKCGDYSTGIVSTRTKMNGCTKAKQCIAYKSDQTKWVFNSPDLIRHTDHSVQGKLHIPFRLTPTVCPVPLAHTPTVTKWFKGITLHLTATRPTLLTTRKLGLRADATAEWITGTTSRNFSVGREGLEYVWGNHEPVRVWAQESAPGDPHGWPHEIIIHYYHRHPVYTVIVLCGVALAILVGTASSAACIAKARRDCLTPYALAPNATVPTALAVLCCI |
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)
| U: PHE27 THR28 SER30 SER31 TYR32 SER53 HIS54 TYR55 ASN73 SER74 ARG100 SER101 CYS104 CYS109 ASN110 G: ASN199 THR201 TYR202 LYS205 ASP208 TYR209 SER210 THR211 GLY212 ILE213 VAL214 SER215 THR216 THR218 LYS219 MET220 ASN221 |
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)
