Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2483 |
| PDBID: | 6MTO |
| Chains: | HL_T |
| Organism: | Homo sapiens, Human immunodeficiency virus 1 |
| Method: | XRD |
| Resolution (Å): | 2.63 |
| Reference: | 10.1016/j.immuni.2019.02.008 |
| Antibody | |
| Antibody: | VRC42.01 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | VRC42 epitope T117-F scaffold |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >6MTO_H|Chain B[auth H]|Antibody VRC42.01 Fab heavy chain|Homo sapiens (9606) QVQLVQSGPEVKKPGSSLKVSCKASGGSFSTYTLSWVRQTPGQGLEWMGGIIPLLGLPNYAPKFQGRVTFSADTSTNTAYMEMSRLRFEDTAVYFCAREGAGWFGKPVGAMGYWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPK |
Light Chain: L
Mutation: NULL
| >6MTO_L|Chain A[auth L]|Antibody VRC42.01 Fab light chain|Homo sapiens (9606) EIVLTQSPDTLSLSPGERASLSCRASQNVRNSNLAWYQHKPGQPPRLLIYGASSRASGIPGRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYGGSFGTFGQGTKVEFRRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: T
Mutation: NULL
| >6MTO_T|Chain C[auth T]|VRC42 epitope T117-F scaffold|Human immunodeficiency virus 1 (11676) QGIHFRRHYVRHLPKEVSQNDIIKALASPLINDGMVVSDFADHVITREQNFPTGLPVEPVGVAIPHTDSKYVRQNAISVGILAEPVNFEDAGGEPDPVPVRVVFMLALGNWFDITKWLWYIKAVIQDEDFMQQLLVMNDDEIYQSIYTRISELEVLFQGP |
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)
| L: ARG29 ASN30 ASN32 GLN89 TYR91 GLY92 GLY93 SER94 PHE95 GLY96 H: THR31 TYR32 THR33 SER35 TRP47 GLY50 LEU53 LEU54 GLY55 LEU56 PRO57 ASN58 THR73 GLU95 TRP99 T: ARG56 PHE60 PRO61 THR62 LEU64 ILE73 HIS75 THR76 ASP77 SER78 ALA100 GLY101 GLY118 ASN119 TRP120 PHE121 ASP122 ILE123 THR124 LYS125 LEU127 TRP128 LYS131 LEU165 PHE166 GLN167 |
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)
