Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 444 |
| PDBID: | 3CFI |
| Chains: | I_H |
| Organism: | Vibrio vulnificus, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.58 |
| Reference: | 10.1016/j.jsb.2008.11.008 |
| Antibody | |
| Antibody: | NBEPSIJ_11 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Type II secretory pathway, pseudopilin EpsI |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: I
Mutation: NULL
| >3CFI_I|Chain C, F, I, L|Nanobody NBEPSIJ_11|Lama glama (9844) QVQLQESGGGLVQPGGSLRLSCAASGFAFSGYAMSWVRQAPGKGLEWVSGINRDGSTSYTAPVKGRFTISRDNAKNILYLQMNSLRPEDTAVYYCAKWLGGRDWYDRGQGTQVTVS |
Antigen
Chain: H
Mutation: NULL
| >3CFI_H|Chain B, E, H, K|Type II secretory pathway, PSEUDOPILIN EpsJ|Vibrio vulnificus (672) NELSQERTARLNELQRALVMMDSDFRQIALRQTRTNGEEPSKKLLHWADYLLDSDNKGIMFARLGWHNPQQQFPRGEVTKVGYRIKDERLERVWWRYPDTPAGQEGVVTPLLSDVEELNVRFYDGKQWINEWSNELTLPAAISVELTLKDYGKIARTYLTPEGN |
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)
| I: PHE27 ALA28 GLY31 TYR32 ALA33 LEU45 GLU46 TRP47 ASN52 ARG53 THR60 TRP98 LEU99 GLY101 ARG102 ASP103 TRP104 TYR105 ASP106 ARG107 H: THR65 ASN66 GLY67 TYR80 LEU82 ASP83 SER84 ASP85 LYS110 ARG114 LYS116 ASP117 ARG119 VAL123 TRP125 ASP129 PRO131 ALA132 GLY133 GLN134 GLU135 GLY136 VAL138 |
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)
