Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7146 |
| PDBID: | 5M2I |
| Chains: | H_A |
| Organism: | Homo sapiens, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.15 |
| Reference: | 10.3389/fimmu.2017.00867 |
| Antibody | |
| Antibody: | 1 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Tumor necrosis factor (TNF) |
| Antigen mutation: | No |
| Durg Target: | P01375 |
Sequence information
Antibody
Chain: H
Mutation: NULL
| >5M2I_H|Chain G, H, I, J, K, L|VHH1|Lama glama (9844) VQLVESGGGLVQAGGSLSLSCSASGRSLSNYYMGWFRQAPGKERELLGNISWRGYNIYYKDSVKGRFTISRDDAKNTIYLQMNRLKPEDTAVYYCAASILPLSDDPGWNTYWGQGTQVTVS |
Antigen
Chain: A
Mutation: NULL
| >5M2I_A|Chain A, B, C, D, E, F|Tumor necrosis factor|Homo sapiens (9606) VRSSSRTPSDKPVAHVVANPQAEGQLQWLNRRANALLANGVELRDNQLVVPSEGLYLIYSQVLFKGQGCPSTHVLLTHTISRIAVSYQTKVNLLSAIKSPCQRETPEGAEAKPWYEPIYLGGVFQLEKGDRLSAEINRPDYLDFAESGQVYFGIIAL |
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)
| H: SER28 SER30 ASN31 TYR32 TYR33 LEU47 ASN50 SER52 TRP53 ARG54 TYR56 ASN57 TYR59 TYR60 LYS61 ASP62 SER63 LYS65 ILE100 LEU101 PRO102 LEU103 SER104 ASP105 ASP106 ASN110 A: GLU23 GLY24 GLN25 ASP45 GLN47 THR72 HIS73 VAL74 LEU75 THR77 THR79 ILE83 VAL85 TYR87 GLN88 THR89 LYS90 VAL91 ASN92 SER95 ILE97 ARG131 GLU135 ILE136 ASN137 ARG138 PRO139 ASP140 |
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)
