Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1038 |
| PDBID: | 4X7F |
| Chains: | D_B |
| Organism: | Norwalk virus, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 1.70 |
| Reference: | 10.1128/JVI.03176-14 |
| Antibody | |
| Antibody: | Nano-25 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Capsid protein(norovirus GII.10 P domain) |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >4X7F_D|Chain C, D|Nano-25 Nanobody|Vicugna pacos (30538) DVQLVESGGGLVQPGGSLRLSCAASESILSFNHMAWYRQGPGEQRELVAVITREGSTDYADSVKGRFTISRDNAKNMVYLLMSNLRPEDTAVYYCNRGISNPWGQGTQVTVSSHHHHHH |
Antigen
Chain: B
Mutation: NULL
| >4X7F_B|Chain A, B|Capsid protein|Norwalk virus (11983) SKPFTLPILTLGELTNSRFPLPIDVLYTNPNESAIVQCQNGRCTLDGELQGTTQLLPTGICAFRGKVTQQVQDEHRGTHWNMTVTNLNGTPFDPTEDVPAPLGTPDFSGQIYGVISQRNTNTVPGEGNLPANRAHEAVIATYSPKFTPKLGNIQFSTWETQDVSSGQPTKFTPVGLASVDANSHFDQWTLPSYSGALTLNMNLAPSVAPVFPGECLLFFRSFIPLKGGYGNPAIDCLMPQEWVQHLYQESAPSLSDVALVRYVNPETGRTLFEAKLHRNGFLTVARNSAGPVVAPTNGYFRFDSWVNQFYTLAPM |
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: ASP1 VAL2 GLU26 SER30 PHE31 ASN32 HIS33 ALA35 TYR37 ARG45 GLU46 LEU47 VAL50 THR52 ARG53 SER56 ASP58 TYR59 ALA60 LYS64 ARG97 GLY98 ILE99 SER100 B: PRO253 GLU255 SER256 ILE258 VAL259 GLN260 GLN273 LEU426 PRO428 SER429 VAL430 ALA431 PRO432 VAL433 PHE434 PRO435 GLY436 GLU437 ASP479 HIS500 ASN502 PHE504 ASN530 GLN531 PHE532 |
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)
