Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1657 |
| PDBID: | 5T3X |
| Chains: | DE_G |
| Organism: | Human immunodeficiency virus 1, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.90 |
| Reference: | 10.1038/nsmb.3291 |
| Antibody | |
| Antibody: | IOMA Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 BG505 SOSIP.664 gp160 |
| Antigen mutation: | Yes |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: D
Mutation: NULL
| >5T3X_D|Chain E[auth D]|IOMA Heavy Chain|Homo sapiens (9606) EVQLVESGAQVKKPGASVTVSCTASGYKFTGYHMHWVRQAPGRGLEWMGWINPFRGAVKYPQNFRGRVSMTRDTSMEIFYMELSRLTSDDTAVYYCAREMFDSSADWSPWRGMVAWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKT |
Light Chain: E
Mutation: NULL
| >5T3X_E|Chain F[auth E]|IOMA Light Chain|Homo sapiens (9606) QSALTQPASVSGSPGQSITISCAGSSRDVGGFDLVSWYQQHPGKAPKLIIYEVNKRPSGISSRFSASKSGNTASLTISGLQEEDEAHYYCYSYADGVAFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: G
Mutation: T301N/A469C
| >5T3X_G|Chain B[auth G]|Envelope glycoprotein gp160|Human immunodeficiency virus 1 (11676) AENLWVTVYYGVPVWKDAETTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINENQGNRSNNSNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQAFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFANSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNTSVQGSNSTGSNDSITLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTRCKRRVVGRRRRRR |
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 D: THR30 HIS33 TRP50 PHE54 ARG55 GLY56 ALA57 VAL58 LYS59 TYR60 PRO61 GLN62 ARG65 MET70 THR71 ARG72 THR74 SER75 SER104 ALA105 ASP106 TRP107 SER108 PRO109 TRP110 E: ARG27 PHE32 TYR93 ALA94 ASP95 GLY96 G: TRP66 LYS67 GLU72 HIS75 ASN167 THR168 THR227 THR248 ASN249 ASN250 ALA251 LYS252 SER334 GLY335 GLY336 ASP337 GLU339 VAL340 MET394 TRP395 GLN396 ILE398 THR423 ARG424 ASP425 GLY426 GLY427 SER428 ASN430 GLU434 THR435 ARG437 GLY440 GLY441 ASP442 MET443 ARG444 |
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)
