Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1342 |
| PDBID: | 5F9W |
| Chains: | BC_A |
| Organism: | Human immunodeficiency virus 1, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.89 |
| Reference: | 10.1016/j.cell.2016.02.022 |
| Antibody | |
| Antibody: | CH235 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 clade A/E 93TH057 gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: B
Mutation: NULL
| >5F9W_B|Chain B, E[auth H]|Heavy chain of CH235-lineage antibody CH235|Homo sapiens (9606) QVQLVQSGAEVKKPGASVTVSCQASGYTFTNYYVHWVRQAPGQGLQLMGWIDPSWGRTNYAQNFQGRITMTRDTSTSTVYMEMRSLRSEDTAVYYCARNVATEGSLLHYDYWGQGTLVTVSAASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSC |
Light Chain: C
Mutation: NULL
| >5F9W_C|Chain C, F[auth L]|Light chain of CH235-lineage antibody CH235|Homo sapiens (9606) EIVLTQSPATLSVSPGERATLSCRASQSVRSNLAWYQQRPGQAPRLLIYGTSTRATGVPARFSGRGSGTEFTLAISSMQSEDFAVYLCLQYNNWWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: A
Mutation: NULL
| >5F9W_A|Chain A, D[auth G]|clade A/E 93TH057 HIV-1 gp120 core|Human immunodeficiency virus 1 (11676) VWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTGGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSENLTNNAKTIIVHLNKSVEINCTRPSNGGSGSGGDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEITMHHFNCRGEFFYCNTTQLFNNTCIGNETMKGCNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRDGGANNTSNETFRPGGGNIKDNWRSELYKYKVVQIE |
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: ASN31 TYR33 TRP50 TRP54 GLY55 ARG56 THR57 ASN58 TYR59 ALA60 GLN61 GLN64 ARG71 SER74 ALA97 THR98 GLU99 C: GLU1 ARG30 ASN32 TYR91 ASN92 ASN93 TRP94 TRP96 A: TRP96 LYS97 GLU102 GLY124 GLU275 ASN276 LEU277 THR278 ASN279 ASN280 ALA281 LYS282 THR283 SER365 GLY366 GLY367 ASP368 GLU370 ILE371 ASN425 MET426 TRP427 THR455 ARG456 ASP457 GLY458 GLY459 ALA460 ASN461 ASN462 THR463 ARG469 PRO470 GLY471 GLY472 GLY473 ASN474 LYS476 ASP477 ARG480 |
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)
