Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2676 |
| PDBID: | 6P62 |
| Chains: | CD_B |
| Organism: | Human immunodeficiency virus 1, Oryctolagus cuniculus |
| Method: | EM |
| Resolution (Å): | 3.57 |
| Reference: | 10.1016/j.immuni.2019.10.008 |
| Antibody | |
| Antibody: | E70 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 clone BG505 gp160 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: C
Mutation: NULL
| >6P62_C|Chain B[auth C], E[auth F], H|Rabbit monoclonal antibody E70 heavy chain fragment antigen binding|Oryctolagus cuniculus (9986) QSLEESGGGLVKPGGTLTLTCKASGIDFTSGYDMCWVRQAPGKGLEWVACIYLGDGNTYYASWAKGQFTISKTSSTTVTLQMTSLTAADTATYFCARFAGYRYSVWSYPDLWGPGTLVTVSSGQPKAPSVFPLAPCCGDTPSSTVTLGCLVKGYLPEPVTVTWNSGTLTNGVRTFPSVRQSSGLYSLSSVVSVTSSSQPVTCNVAHPATNTKVDKTVAPSTCSK |
Light Chain: D
Mutation: NULL
| >6P62_D|Chain C[auth D], F[auth G], I[auth L]|Rabbit monoclonal antibody E70 kappa chain|Oryctolagus cuniculus (9986) DIVMTQTPASVEADVGGTVTIKCQASQRIVNLVAWYQHKPGQPPKLLIIGASDLASGVPSRFSGSGYGTEFTLTISDLECADAATYFCQSAYNGDGDNAFGGGTEVVVKGDPVAPSVLIFPPAADQVATGTVTIVCVANKYFPDVTVTWEVDGTTQTTGIENSKTPQNSADCTYNLSSTLTLTSTQYNSHKEYTCKVTQGTTSVVQSFNRGDC |
Antigen
Chain: B
Mutation: NULL
| >6P62_B|Chain A, D[auth B], G[auth E]|HIV-1 Env BG505 NFL TD+|Human immunodeficiency virus 1 (11676) MPMGSLQPLATLYLLGMLVASVLAAENLWVTVYYGVPVWKDAETTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINENQGNRSNNSNKEYRLINCNTSACTQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNYTRKSIRIGPGQAFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFANSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNTSVQGSNSTGSNDSITLPCRIKQIINMWQRIGQCMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTRAKRRVVGGGGGSGGGGSAVGIGAVRRGFLGAAGSTMGAASMTLTVQARNLLSGIVQQQSNLLRAPEAQQHLLKLTVWGIKQLQARVLAVERYLRDQQLLGIWGCSGKLICTTNVPWNSSWSNRNLSEIWDNMTWLQWDKEISNYTQIIYGLLEESQNQQEKNEQDLLALDGGGGSHHHHHHHH |
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)
| C: TYR33 ALA96 GLY97 TYR98 ARG99 D: ARG28 ILE29 VAL30 ASN31 LEU32 ILE49 GLY50 GLY66 TYR67 TYR92 B: THR278 ASN279 ASN280 ALA281 HIS352 PHE353 GLY354 ASN356 THR357 SER365 GLY366 VAL371 THR455 ARG456 ASP457 GLY458 GLY459 SER460 THR461 ASN462 SER463 THR464 GLU466 ARG469 PRO470 |
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)
