Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4284 |
| PDBID: | 7MDT |
| Chains: | HL_A |
| Organism: | Human immunodeficiency virus 1, Macaca mulatta |
| Method: | EM |
| Resolution (Å): | 3.60 |
| Reference: | 10.1126/sciadv.abk2039 |
| Antibody | |
| Antibody: | Rh4O9.8 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 BG505 SOSIP.v5.2 envelope glycoprotein - gp120 |
| Antigen mutation: | No |
| Durg Target: | P00750 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7MDT_H|Chain D[auth H]|Rh4O9.8 monoclonal antibody Heavy Chain|Macaca mulatta (9544) EVQLQESGGGLAQPGGSLRLTCEASGFTFGRDDMAWVRQALGKGLEWVSSISNSGNTIYYADPVKGRFSISRDNAKNSLSLQMNSLKIEDTAVYFCTRTLGDYYLDWGQGVQVTVSS |
Light Chain: L
Mutation: NULL
| >7MDT_L|Chain C[auth L]|Rh4O9.8 monoclonal antibody Light Chain|Macaca mulatta (9544) QAGLTQPPSASEAAGKSVTISCSGSSANIGSTSVSWYQQLPGTAPKLLIYYNDQRASGVSDRFSGSKSGTSASLAISGLQTEDEADYYCAAWDDNLSGRIFGGGTRLTVL |
Antigen
Chain: A
Mutation: NULL
| >7MDT_A|Chain A, E[auth C], F[auth E]|Surface protein gp120|Human immunodeficiency virus 1 (11676) MKRGLCCVLLLCGAVFVSPSQEIHARFRRGARAENLWVTVYYGVPVWKDAETTLFCASDAKAYETKKHNVWATHCCVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINENQGNRSNNSNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQWFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFANSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNTSVQGSNSTGSNDSITLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTRCKRRVVGRRRRRR |
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 L: GLY29 SER30 THR31 SER32 TYR49 TYR50 TRP91 ASP93 ARG96 H: ARG31 ASP32 ASP33 SER50 ILE51 ASN52 SER53 ASN55 THR56 TYR58 LEU96 GLY97 ASP98 TYR99 A: THR132 ASN133 THR135 ASN136 ASN137 ILE138 THR139 ASP140 ASP141 ARG151 LYS189 ASP325 ARG327 PRO417 |
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)
