Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1619 |
| PDBID: | 5O02 |
| Chains: | C_A |
| Organism: | Norovirus 13-BH-1/2013/GII.17, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 1.72 |
| Reference: | 10.1371/journal.ppat.1006636 |
| Antibody | |
| Antibody: | Nano-4 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Norwalk virus Capsid protein |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: C
Mutation: NULL
| >5O02_C|Chain B[auth C]|Nanobody (VHH) Nano-4|Vicugna pacos (30538) QVQLQESGGGLVQPGGSLRLFCAASGFTFSSYAMRWYRQAPGKERELVAAITSAGGSTHYADSVKERFTISRDNAKNTMYLQMNSLKPEDTAVYYCNARRDYGDSWFTAGGGYWGQGTQVTVSS |
Antigen
Chain: A
Mutation: NULL
| >5O02_A|Chain A|Capsid protein|Norovirus 13-BH-1/2013/GII.17 (1508693) GPGSKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTTQLLPSGICAFRGRVTAETDHRDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGVASQRNVGNDAPGSTRAHEAVISTYSPQFVPKLGSVNFRSNDNDFQLQPTKFTPVGINDDGDHPFRQWELPDYSGLLTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIVDCLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVPANGYFRFDSWVNQFYSLAPM |
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)
| C: VAL2 TYR32 ARG99 ARG100 TYR102 ASP104 TRP106 ALA109 GLY110 GLY111 GLY112 TYR113 TRP114 A: LEU472 ARG474 GLY481 ARG482 THR483 LEU484 PHE485 GLU486 ASP516 SER517 VAL519 ASN520 PHE522 TYR523 SER524 LEU525 ALA526 PRO527 |
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)
