Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2773 |
| PDBID: | 6QGY |
| Chains: | D_C |
| Organism: | Escherichia coli O157 |
| Method: | XRD |
| Resolution (Å): | 2.51 |
| Reference: | 10.1007/s10858-019-00250-8 |
| Antibody | |
| Antibody: | B12 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Outer membrane protein assembly factor BamA |
| Antigen mutation: | Yes |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >6QGY_D|Chain B, D|NanoB12|Lama glama (9844) SQGQLVESGGGMVQAGGSLRLSCAASGRTFNGWTAAWFRQAPGKDREFVAAISRSGDYTYYTNSVKGRFTISRDSAKNNLYLQMDSLKPEDTAVYYCAAKTGTWATMDRRYDYWGQGTRVTVSA |
Antigen
Chain: C
Mutation: C291S/C301S
| >6QGY_C|Chain A, C|Outer membrane protein assembly factor BamA|Escherichia coli O157:H7 (83334) MGSSHHHHHHSSGENLYFQHMRNTGSFNFGIGYGTESGVSFQAGVQQDNWLGTGYAVGINGTKNDYQTYAELSVTNPYFTVDGVSLGGRLFYNDFQADDADLSDYTNKSYGTDVTLGFPINEYNSLRAGLGYVHNSLSNMQPQVAMWRYLYSMGEHPSTSDQDNSFKTDDFTFNYGWTYNKLDRGYFPTDGSRVNLTGKVTIPGSDNEYYKVTLDTATYVPIDDDHKWVVLGRTRWGYGDGLGGKEMPFYENFYAGGSSTVRGFQSNTIGPKAVYFPHQASNYDPDYDYESATQDGAKDLSKSDDAVGGNAMAVASLEFITPTPFISDKYANSVRTSFFWDMGTVWDTNWDSSQYSGYPDYSDPSNIRMSAGIALQWMSPLGPLVFSYAQPFKKYDGDKAEQFQFNIGKTW |
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)
| D: LYS44 GLU47 PHE48 SER53 ARG54 SER55 ASP57 TYR58 TYR60 TYR61 THR62 ASN63 SER64 LYS66 LYS100 THR101 GLY102 THR103 TRP104 ALA105 THR106 MET107 ARG109 ARG110 C: GLN495 ASP497 ASP498 ASP500 LEU501 ASP503 THR505 SER537 ASN538 GLN540 ASP560 GLN561 ASP562 GLN664 TYR674 PHE675 PRO676 HIS677 GLN678 ALA679 ASN681 ASP698 SER700 LYS701 SER702 ASP703 ASP704 ASP795 GLY796 LYS798 |
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)
