Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1344 |
| PDBID: | 5FCU |
| Chains: | HL_G |
| Organism: | Human immunodeficiency virus 1, Macaca mulatta |
| Method: | XRD |
| Resolution (Å): | 1.85 |
| Reference: | 10.1016/j.str.2016.03.005 |
| Antibody | |
| Antibody: | JR4 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: H
Mutation: NULL
| >5FCU_H|Chain B[auth H]|JR4 FAB HEAVY CHAIN|Macaca mulatta (9544) HSEVQLVESGPGLVKPLETLSLTCAVPGGSIRRNYWSWIRQPPGKGLEWIGHSYGSGGSTNYNPSLESRVTLSVDTSKNLFSLKLTSVTAADTAVYYCARTVWYYTSGTHYFDHWGQGVLVTVSSASTKGPSVFPLAPSSRSTSESTAALGCLVKDYFPEPVTVSWNSGSLTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYVCNVNHKPSNTKVDKRVEIKTCGGGSK |
Light Chain: L
Mutation: NULL
| >5FCU_L|Chain C[auth L]|JR4 FAB LIGHT CHAIN|Macaca mulatta (9544) QSVLTQPPSVSAAPGQKVTISCSGSSSNIGRSYVSWYQQVPGAAPKLLIYDTNKRPSGVSDRFSGSKSGSSASLAITGLQTGDEADYYCGAWDGSLNVHIFGSGTKLTVLGQPKASPLVTLFPPSSEELQANKATLVCLISDFYPGVVKVAWKADGNSVNTGVETTTPSKQSNNKYAASSYLSLTSDQWKSHKSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: G
Mutation: NULL
| >5FCU_G|Chain A[auth G]|clade A/E 93TH057 HIV-1 gp120 core|Human immunodeficiency virus 1 (11676) VPVWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTGGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSSGGGNIKDNWRSELYKYKVVQIEPLGI |
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 H: GLU1 VAL2 GLY27 SER28 ARG30 ARG31 ASN32 TYR33 SER53 GLY54 GLY55 SER56 ARG94 THR95 VAL96 TRP97 TYR98 TYR99 ASP101 HIS102 L: TYR32 TYR49 ASP50 LYS53 G: THR50 THR51 LEU52 PHE53 CYS54 ALA55 ASP57 HIS72 ALA73 CYS74 VAL75 PRO76 THR77 ASP78 PRO79 ASN80 ASP107 TYR217 PRO220 ALA221 TYR223 VAL224 GLN246 CYS247 |
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)
