Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2907 |
| PDBID: | 6UDA |
| Chains: | KL_I |
| Organism: | Human immunodeficiency virus 1, Homo sapiens |
| Method: | EM |
| Resolution (Å): | 4.20 |
| Reference: | 10.1371/journal.ppat.1008026 |
| Antibody | |
| Antibody: | CH235 UCA Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 CH505.N279K.G458Y.SOSIP.664 gp120 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: K
Mutation: NULL
| >6UDA_K|Chain B[auth C], G, K|CH235 UCA heavy chain Fab|Homo sapiens (9606) METDTLLLWVLLLWVPGSTGDQVQLVQSGAEVKKPGASVKVSCKASGYTFTSYYMHWVRQAPGQGLEWMGIINPSGGSTSYAQKFQGRVTMTRDTSTSTVYMELSSLRSEDTAVYYCARDVGTEGSLLHFDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKT |
Light Chain: L
Mutation: NULL
| >6UDA_L|Chain D, H, L|CH235 UCA light chain Fab|Homo sapiens (9606) METDTLLLWVLLLWVPGSTGDEIVMTQSPATLSVSPGERATLSCRASQSVSSNLAWYQQKPGQAPRLLIYGASTRATGIPARFSGSGSGTEFTLTISSLQSEDFAVYYCQQYNNWWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: I
Mutation: NULL
| >6UDA_I|Chain A, E, I|CH505.N279K.G458Y.SOSIP.664 gp120|Human immunodeficiency virus 1 (11676) MPMGSLQPLATLYLLGMLVASVLAAENLWVTVYYGVPVWKEAKTTLFCASDAKAYEKEVHNVWATHACVPTDPNPQEMVLKNVTENFNMWKNDMVDQMHEDVISLWDQSLKPCVKLTPLCVTLNCTNATASNSSIIEGMKNCSFNITTELRDKREKKNALFYKLDIVQLDGNSSQYRLINCNTSVITQACPKVSFDPIPIHYCAPAGYAILKCNNKTFTGTGPCNNVSTVQCTHGIKPVVSTQLLLNGSLAEGEIIIRSENITKNVKTIIVHLNESVKIECTRPNNKTRTSIRIGPGQAFYATGQVIGDIREAYCNINESKWNETLQRVSKKLKEYFPHKNITFQPSSGGDLEITTHSFNCGGEFFYCNTSSLFNRTYMANSTDMANSTETNSTRTITIHCRIKQIINMWQEVGRAMYAPPIAGNITCISNITGLLLTRDYGKNNTETFRPGGGNMKDNWRSELYKYKVVKIEPLGVAPTRCKRRVV |
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)
| K: TYR33 TRP47 GLY54 GLY55 SER56 THR57 SER58 TYR59 ALA60 GLN61 GLN64 ARG71 THR98 GLU99 L: SER31 ASN32 TYR91 ASN92 ASN93 TRP94 TRP96 I: TRP96 LYS97 GLU275 ILE277 THR278 LYS279 ASN280 VAL281 LYS282 THR283 SER365 GLY366 GLY367 ASP368 ILE371 ARG456 ASP457 TYR458 GLY459 LYS460 ARG467 ARG478 |
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)
