Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2685 |
| PDBID: | 6P8M |
| Chains: | HL_C |
| Organism: | Human immunodeficiency virus 1, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 3.59 |
| Reference: | 10.1016/j.celrep.2019.10.071 |
| Antibody | |
| Antibody: | P-p3b3 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >6P8M_H|Chain B[auth H]|P-p3b3 Heavy Chain|Mus musculus (10090) QVQLVQSGAEVKKPGASVKVSCKASGYTFTGYYIHWVRQAPGQGLEWMGWINPNRGGTNYCQKFQGRVTMTRDTSISTAYMELSRLRSDDTAVYYCARGINSDYTWDFQHWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKTHHHHHH |
Light Chain: L
Mutation: NULL
| >6P8M_L|Chain C[auth L]|P-p3b3 Light Chain|Mus musculus (10090) DIVMSQSPSSLAVSVGEKVTMSCKSSQSLLYSSNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVKAEDLAVYYCQQYETLGSGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: C
Mutation: NULL
| >6P8M_C|Chain A[auth C]|Gp120|Human immunodeficiency virus (11676) VWKEAKTTLFCASDAKAYEKECHNVWATHACVPTDPNPQEVVLENVTENFNMWKNDMVDQMQEDVISIWDQCLKPCVKLTNTSTLTQACPKVTFDPIPIHYCAPAGYAILKCNNKTFNGKGPCNNVSTVQCTHGIKPVVSTQLLLNGSLAEEEIVIRSKNLRDNAKIIIVQLNKSVEIVCTRPNNGGSGSGGDIRQAYCNISGRNWSEAVNQVKKKLKEHFPHKNISFQSSSGGDLEITTHSFNCGGEFFYCNTSGLFNDTISNATIMLPCRIKQIINMWQEVGKAIYAPPIKGNITCKSDITGLLLLRDGCDTTDNTEIFRPSGGDMRDNWRSELYKYKVVEIKPL |
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: THR30 TYR33 TRP47 TRP50 ASN53 ARG54 GLY55 GLY56 THR57 ASN58 TYR59 CYS60 GLN61 LYS62 GLN64 ARG71 THR73 SER98 ASP99 L: GLN29 LYS30 TYR91 GLU96 THR97 C: LYS236 LYS275 ASN276 ARG278 ASP279 ASN280 ALA281 LYS282 GLN362 SER365 GLY366 GLY367 ASP368 GLU370 ILE371 ASN425 MET426 TRP427 VAL430 LEU455 ARG456 ASP457 GLY458 CYS459 ASP460 THR461 THR462 THR465 GLU466 ILE467 ARG469 SER471 GLY472 GLY473 |
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)
