Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3249 |
| PDBID: | 6XZF |
| Chains: | B_A |
| Organism: | Aequorea victoria, Lama glama |
| Method: | XRD |
| Resolution (Å): | 1.80 |
| Reference: | Not available or To be published |
| Antibody | |
| Antibody: | Engineered Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | eGFP |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >6XZF_B|Chain B|Nanobody targeted against eGFP|Lama glama (9844) QVQLVESGGALVQPGGSLRLSCAASGFPVNRYSMRWYRQADTNNDGWIEGDELKEREWVAGMSSAGDRSSYEDSVKGRFTISRDDARNTVYLQMNSLKPEDTAVYYCNVNVGFEYWGQGTQVTVSSHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >6XZF_A|Chain A|eGFP|Aequorea victoria (6100) VSKGEELFTGVVPILVELDGDVNGHKFSVSGEGEGDATYGKLTLKFICTTGKLPVPWPTLVTTLTYGVQCFSRYPDHMKQHDFFKSAMPEGYVQERTIFFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNYNSHNVYIMADKQKNGIKVNFKIRHNIEDGSVQLADHYQQNTPIGDGPVLLPDNHYLSTQSALSKDPNEKRDHMVLLEFVTAAGITLGMDELYK |
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)
| Chain residues position delta_SASA
: residuesposition B: SER33 ARG35 TYR37 LYS43 GLU44 ARG45 TRP47 GLY50 MET51 SER52 ARG57 SER58 SER59 ASN97 ASN99 GLY101 PHE102 GLU103 TRP105 A: LYS140 GLU142 ASN144 TYR145 ASN146 SER147 ASN149 TYR151 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 < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
