Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4286 |
| PDBID: | 7MDU |
| Chains: | EF_A |
| Organism: | Macaca mulatta, Human immunodeficiency virus 1 |
| Method: | EM |
| Resolution (Å): | 3.30 |
| Reference: | 10.1126/sciadv.abk2039 |
| Antibody | |
| Antibody: | RM20A3 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | HIV-1 BG505 SOSIP MD39 envelope glycoprotein - gp120 |
| Antigen mutation: | No |
| Durg Target: | P00750; P00750; |
Sequence information
Antibody
Heavy Chain: E
Mutation: NULL
| >7MDU_E|Chain C[auth E]|RM20A3 mAb Heavy Chain|Macaca mulatta (9544) EVQLVETGGGLVQPGGSLKLSCRASGYTFSSFAMSWVRQAPGKGLEWVSLINDRGGLTFYVDSVKGRFTISRDNSKNTLSLQMHSLRDGDTAVYYCATGGMSSALQSSKYYFDFWGQGALVTVSS |
Light Chain: F
Mutation: NULL
| >7MDU_F|Chain D[auth F]|RM20A3 mAb Light Chain|Macaca mulatta (9544) QSALTQPPSVSGSPGQSVTISCTGTSSDIGSYNYVSWYQQHPGKAPKLMIYDVTQRPSGVSDRFSGSKSGNTASLTISGLQADDEADYYCSAYAGRQTFYIFGGGTRLTVL |
Antigen
Chain: A
Mutation: NULL
| >7MDU_A|Chain B[auth A]|Surface protein gp120|Human immunodeficiency virus 1 (11676) MKRGLCCVLLLCGAVFVSPSQEIHARFRRGARAENLWVTVYYGVPVWKDAETTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINENQGNRSNNSNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVIIRSENITNNAKNILVQLNTPVQINCTRPNNNTVKSIRIGPGQAFYYTGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFAQSSGGDLEVTTHSFNCGGEFFYCNTSGLFNSTWISNTSVQGSNSTGSNDSITLPCRIKQIINMWQRIGQAMYAPPIQGVIRCVSNITGLILTRDGGSTNSTTETFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTRCKRRVVGRRRRRR |
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 E: SER98 SER99 F: ARG94 A: TYR39 PRO498 THR499 ARG500 CYS501 ARG504 |
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)
