Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1765 |
| PDBID: | 5UKB |
| Chains: | d_D |
| Organism: | Vicugna pacos, Vesicular stomatitis Indiana virus, Escherichia coli |
| Method: | XRD |
| Resolution (Å): | 5.47 |
| Reference: | 10.15252/embr.201643764 |
| Antibody | |
| Antibody: | 1004 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Vesicular stomatitis virus nucleocapsid |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: d
Mutation: NULL
| >5UKB_D|Chain B[auth A], D[auth B], F[auth C], H[auth D], J[auth E]|Nucleocapsid|Vesicular stomatitis Indiana virus (11277) MASVTVKRIIDNTVIVPKLPANEDPVEYPADYFRKSKEIPLYINTTKSLSDLRGYVYQGLKSGNVSIIHVNSYLYGALKDIRGKLDKDWSSFGINIGKAGDTIGIFDLVSLKALDGVLPDGVSDASRTSADDKWLPLYLLGLYRVGRTQMPEYRKKLMDGLTNQCKMINEQFEPLVPEGRDIFDVWGNDSNYTKIVAAVDMFFHMFKKHECASFRYGTIVSRFKDCAALATFGHLCKITGMSTEDVTTWILNREVADEMVQMMLPGQEIDKADSYMPYLIDFGLSSKSPYSSVKNPAFHFWGQLTALLLRSTRARNARQPDDIEYTSLTTAGLLYAYAVGSSADLAQQFCVGDNKYTPDDSTGGLTTNAPPQGRDVVEWLGWFEDQNRKPTPDMMQYAKRAVMSLQGLREKTIGKYAKSEFDK |
Antigen
Chain: D
Mutation: NULL
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: ARG27 PHE29 ARG30 ASN31 ARG33 ASN52 TRP53 GLY54 VAL56 ILE57 ASP74 PHE99 ASP100 SER101 THR102 GLY103 SER104 PRO105 GLU112 D: THR44 THR45 TYR74 LYS78 ASP79 ARG81 THR101 GLY103 PHE105 ASP106 SER109 LEU110 LYS111 ALA112 LEU113 ASP114 |
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)
