Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6637 |
| PDBID: | 3K1K |
| Chains: | C_A |
| Organism: | Aequorea victoria, Camelus dromedarius |
| Method: | XRD |
| Resolution (Å): | 2.15 |
| Reference: | 10.1038/nsmb.1727 |
| Antibody | |
| Antibody: | 3K1K Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Green fluorescent protein (GFP) |
| Antigen mutation: | Yes |
| Durg Target: | |
Sequence information
Antibody
Chain: C
Mutation: NULL
| >3K1K_C|Chain C, D|Enhancer|Camelus dromedarius (9838) MAQVQLVESGGALVQPGGSLRLSCAASGFPVNRYSMRWYRQAPGKEREWVAGMSSAGDRSSYEDSVKGRFTISRDDARNTVYLQMNSLKPEDTAVYYCNVNVGFEYWGQGTQVTVSSHHHHHH |
Antigen
Chain: A
Mutation: S2G/Q80R/F99S/M153T/V163A
| >3K1K_A|Chain A, B|Green Fluorescent Protein|Aequorea Victoria (6100) MGKGEELFTGVVPILVELDGDVNGHKFSVSGEGEGDATYGKLTLKFICTTGKLPVPWPTLVTTFSYGVQCFSRYPDHMKRHDFFKSAMPEGYVQERTISFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNYNSHNVYITADKQKNGIKANFKIRHNIEDGSVQLADHYQQNTPIGDGPVLLPDNHYLSTQSALSKDPNEKRDHMVLLEFVTAAGITHGMDELYK |
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: SER33 ARG35 TYR37 GLU44 ARG45 TRP47 GLY50 MET51 SER52 ARG56 SER58 ASN93 ASN95 GLY97 PHE98 GLU101 TRP103 A: LYS140 GLU142 ASN144 TYR145 ASN146 SER147 LYS166 ARG168 ASN170 GLU172 ASP173 GLY174 SER175 VAL176 GLN204 SER205 ALA206 LEU207 LEU221 PHE223 |
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)
