Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1641 |
| PDBID: | 5OVW |
| Chains: | G_C |
| Organism: | Escherichia coli, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.65 |
| Reference: | 10.1038/s41598-017-14512-8 |
| Antibody | |
| Antibody: | Nb9 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | periplasmic binding protein BtuF |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: G
Mutation: NULL
| >5OVW_G|Chain G, H, I, J, K, L|Nanobody|Lama glama (9844) MKYLLPTAAAGLLLLAAQPAMAQMQLVESGGGLVQPGGSLRLSCAAPESTLDDYAIGWFRQAPGKEREGVSCIGSSGDSTNYADSVKGRFTVSRDNAKNTVYLQMNDLRPEDTAVYYCAAAHRIFGGCLVIHSSGYVSWGQGTPVTVSSHHHHHHEPEA |
Antigen
Chain: C
Mutation: NULL
| >5OVW_C|Chain A, B, C, D, E, F|Vitamin B12-binding protein|Escherichia coli (562) MKKTAIAIAVALAGFATVAQAASMAAPRVITLSPANTELAFAAGITPVGVSSYSDYPPQAQKIEQVSTWQGMNLERIVALKPDLVIAWRGGNAERQVDQLASLGIKVMWVDATSIEQIANALRQLAPWSPQPDKAEQAAQSLLDQYAQLKAQYADKPKKRVFLQFGINPPFTSGKESIQNQVLEVCGGENIFKDSRVPWPQVSREQVLARSPQAIVITGGPDQIPKIKQYWGEQLKIPVIPLTSDWFERASPRIILAAQQLCNALSQVDSGSLEVLFQGPGGSHHHHHH |
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)
| G: MET24 GLU48 SER49 THR50 ASP52 ASP53 TYR54 PHE59 GLY69 VAL70 SER71 CYS72 GLY74 SER79 ASN81 TYR82 ALA83 ASP84 ASN96 ALA97 HIS122 ARG123 ILE124 PHE125 GLY126 CYS128 LEU129 VAL130 ILE131 HIS132 SER133 SER134 TYR136 SER138 C: LEU29 SER30 PRO31 SER48 SER49 TYR50 SER64 THR65 TRP66 GLN67 GLY68 TRP85 GLY87 GLY88 ALA90 GLN93 PHE162 GLY163 ILE164 ASN165 PRO166 PHE168 GLN176 VAL194 PRO195 TRP196 GLN198 THR215 GLY216 GLN220 LYS223 SER241 GLU245 |
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)
