Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7098 |
| PDBID: | 5E7F |
| Chains: | B_H |
| Organism: | Camelus dromedarius, Lactococcus phage Tuc2009 |
| Method: | XRD |
| Resolution (Å): | 2.70 |
| Reference: | 10.1128/mBio.01781-15 |
| Antibody | |
| Antibody: | L06 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Lactococcal phage Tuc2009 RBP head domain |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >5E7F_B|Chain A, B, C|nanobody L06|Camelus dromedarius (9838) QVQLVESGGGSVQAGGSLRLSCTASGFTFDDSDMGWYHQAPGNECELVSAIFSDGSTYYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTAMYYCAAATTTVASPPVRHVCNGYWGQGTQVTVSSHHHHHH |
Antigen
Chain: H
Mutation: NULL
| >5E7F_H|Chain D[auth G], E[auth H], F[auth I]|Major structural protein 1|Lactococcus phage Tuc2009 (35241) MAELTKITRGMQNGAETINDNLNKLNTITVQKTGDETIAGKKTFSGDVSVDGDFTMKKFADSYVAFFANKGSGNTVTFTAPWDCTAEVELFYHGWGYSGGEWEIGITTPSGLTQIYEATGYTNGHDNQAISMPTKAIYSGLKKGLQYTFDIRDANGRGGGPKHPMMIVKLYRNA |
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: ASP33 ASP35 MET36 GLY37 TYR39 GLU48 LEU49 ALA52 PHE54 SER55 ASP56 SER58 TYR60 LYS66 ALA98 ALA99 ALA100 THR102 SER106 PRO107 PRO108 VAL109 ARG110 VAL112 TRP117 H: ASP47 VAL48 SER49 VAL50 ASP51 ASP53 PHE54 LYS57 LYS58 ALA60 ASP61 LYS70 |
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)
