Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 881 |
| PDBID: | 4ORZ |
| Chains: | C_B |
| Organism: | Homo sapiens, HIV-1 M |
| Method: | XRD |
| Resolution (Å): | 2.00 |
| Reference: | 10.1186/1742-4690-11-24 |
| Antibody | |
| Antibody: | 19 VH-sdAb |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 Protein Nef |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: C
Mutation: NULL
| >4ORZ_C|Chain C|single domain antibody sdAb19|Lama glama (9844) GAMAEVQLVESGGGLVQAGGSLRLFCAASGFTFGTSNMAWLRQAPGKRREWVALITISGYTDYADSVKDRFTISRDNAKNTVSLQMNSLKPEDTAIYFCARRVGSEYDLWGQGTQVTVSS |
Antigen
Chain: B
Mutation: NULL
| >4ORZ_B|Chain B|Protein Nef|HIV-1 M:B_ARV2/SF2 (11685) GAMASSNTAATNADSAWLEAQEEEEVGFPVRPQVPLRPMTYKAALDISHFLKEKGGLEGLIWSQRRQEILDLWIYHTQGYFPDWQNYTPGPGIRYPLTFGWCFKLVPVEPEKVDAEKEVLVWRFDSKLAFHHMARELHPEYYKDA |
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 C: ASN35 ARG46 ARG47 GLU48 TRP49 LEU52 THR54 ILE55 SER56 TYR58 THR59 ASP60 TYR61 ASP63 ARG100 GLY102 SER103 B: THR132 PRO133 GLY134 PRO135 ILE137 TYR139 LYS148 VAL150 PRO151 PRO154 GLU155 LYS156 VAL157 ARG188 ASP190 LYS192 PHE195 HIS196 HIS197 MET198 GLU201 LEU202 HIS203 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
