Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2687 |
| PDBID: | 6P8N |
| Chains: | BD_A |
| Organism: | Human immunodeficiency virus 1, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 3.20 |
| Reference: | 10.1016/j.celrep.2019.10.071 |
| Antibody | |
| Antibody: | P-p1f1 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 gp120 engineered outer domain eOD-GT8 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: B
Mutation: NULL
| >6P8N_B|Chain B, E[auth H]|P-p1f1 Heavy Chain|Mus musculus (10090) QVQLVQSGAEVKKPGASVKVSCKASGYTFTGYYMNWVRQAPGQGLEWMGWINPNSGGTNYAQKFQGRVTMTRDTSISTAYMELSRLRSDDTAVYYCARGKNSDYNWDFQHWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDK |
Light Chain: D
Mutation: NULL
| >6P8N_D|Chain C[auth D], F[auth L]|P-p1f1 Light Chain|Mus musculus (10090) DIVMSQSPSSLAVSVGEKVTMSCKSSQSLLYSSNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVKAEDLAVYYCQQYEMFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: A
Mutation: NULL
| >6P8N_A|Chain A, D[auth C]|Env outer domain eOD-GT8|Human immunodeficiency virus 1 (11676) DTITLPCRPAPPPHCSSNITGLILTRQGGYSNDNTVIFRPSGGDWRDIARCQIAGTVVSTQLFLNGSLAEEEVVIRSEDWRDNAKSICVQLNTSVEINCTGAGHCNISRAKWNNTLKQIASKLREQYGNKTIIFKPSSGGDPEFVNHSFNCGGEFFYCDSTQLFNSTWFNSTGSGSGHHHHHH |
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)
| B: TYR33 TRP47 TRP50 ASN53 SER54 GLY55 GLY56 THR57 ASN58 TYR59 ALA60 GLN61 LYS62 GLN64 ARG71 ASP99 D: ILE2 VAL3 LYS30 TYR32 TYR91 GLU96 MET97 A: THR25 ARG26 GLN27 GLY28 GLY29 TYR30 SER31 ILE37 ARG39 GLY42 GLY43 ASP44 ASP47 ASP79 ARG81 ASP82 ASN83 ALA84 LYS85 LYS130 SER138 GLY139 GLY140 ASP141 PHE144 |
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)
