Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1661 |
| PDBID: | 5T5B |
| Chains: | AB_O |
| Organism: | Homo sapiens, synthetic construct |
| Method: | XRD |
| Resolution (Å): | 2.07 |
| Reference: | 10.1371/journal.ppat.1006212 |
| Antibody | |
| Antibody: | 10E8 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | conserved membrane proximal external region (MPER) of gp41 subunit of the envelope (Env) viral glycoprotein |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >5T5B_A|Chain A, C[auth H]|Antibody 10E8 FAB HEAVY CHAIN|Homo sapiens (9606) EVQLVESGGGLVKPGGSLRLSCSASGFDFDNAWMTWVRQPPGKGLEWVGRITGPGEGWSVDYAAPVEGRFTISRLNSINFLYLEMNNLRMEDSGLYFCARTGKYYDFWSGYPPGEEYFQDWGRGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDK |
Light Chain: B
Mutation: NULL
| >5T5B_B|Chain B, D[auth L]|Antibody 10E8 FAB LIGHT CHAIN MUTATED|Homo sapiens (9606) SYELTQETGVSVALGRTVTITCRGDSLASHAASWYQKKPGQAPILLFYGKNNRPSGVPDRFSGSASGNRASLTISGAQAEDDAEYYCSSRDKSGSRLSVFGGGTKLTVLSQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: O
Mutation: NULL
| >5T5B_O|Chain E, F[auth O]|10E8 EPITOPE SCAFFOLD T117V2|synthetic construct (32630) NAMQGIHFRRHYVRHLPKEVSQNDIIKALASPLINDGMVVSDFADHVITREQNFPTGLPVEPVGVAIPHTDSKYVRQNAISVGILAEPVNFEDAGGEPDPVPVRVVFMLALGNWFDITNVLWWIKAVIQDEDFMQQLLVMNDDEIYQSIYTRISELEHHHHHH |
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)
| A: ASP28 ASN31 TRP33 ARG50 GLY52 GLU53 SER56 ASP58 LYS97 TYR98 TYR99 B: LYS51 ARG91 O: LEU64 PRO65 VAL66 ILE73 LYS79 GLY101 GLY118 ASN119 TRP120 PHE121 THR124 ASN125 LEU127 TRP128 ILE130 LYS131 ILE134 GLN135 |
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)
