Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6517 |
| PDBID: | 7RI1 |
| Chains: | B_A |
| Organism: | Human immunodeficiency virus 1, Lama glama |
| Method: | XRD |
| Resolution (Å): | 2.55 |
| Reference: | 10.1016/j.str.2022.03.012 |
| Antibody | |
| Antibody: | J3 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 C1086 gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >7RI1_B|Chain B|Lamma VHH antibody J3|Lama glama (9844) EVQLVESGGGLVQAGGFLRLSCELRGSIFNQYAMAWFRQAPGKEREFVAGMGAVPHYGEFVKGRFTISRDNAKSTVYLQMSSLKPEDTAIYFCARSKSTYISYNSNGYDYWGRGTQVTVSSAAAHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >7RI1_A|Chain A|Glycoprotein 120|Human immunodeficiency virus 1 (11676) DIATMYSMQLASCVTLTLVLLVNSVWKEAKTTLFCASDAKAYEKEVHNVWATHACVPTDPNPQEMVLANVTENFNMWKNDMVEQMHEDIISLWDESLKPCVKLTGGSAITQACPKVSFDPIPLHYCAPAGFAILKCNNKTFNGTGPCRNVSTVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSENLTNNAKTIIVHLNESVNIVCTRPNNGGSGSGGNIRQAHCNINESKWNNTLQKVGEELAKHFPSKTIKFEPSSGGDLEITTHSFNCRGEFFYCNTSDLFNGTYRNGTYNHTGRSSNGTITLQCKIKQIINMWQEVGRAIYAPPIEGEITCNSNITGLLLLRDGGQSNETNDTETFRPGGGDMRDNWRSELYKYKVVEIK |
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: ASN30 GLN31 TYR32 GLY52 ALA53 VAL54 HIS56 ARG69 ASN71 LYS97 SER98 THR99 TYR100 ILE101 SER102 TYR103 ASN104 SER105 ASN106 GLY107 TYR108 ASP109 A: HIS105 ILE109 GLY124 GLY198 ASN280 ALA281 LYS282 THR283 SER365 GLY366 GLY367 ASP368 GLU370 ILE371 ASN425 MET426 TRP427 GLN428 GLU429 VAL430 GLY431 ARG432 LEU455 ARG456 ASP457 GLY458 ARG469 GLY472 GLY473 ASP474 MET475 ARG476 |
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)
