Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2145 |
| PDBID: | 6D2P |
| Chains: | HL_C |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.60 |
| Reference: | 10.1126/scitranslmed.aat0381 |
| Antibody | |
| Antibody: | CLK31 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Germline-targeting HIV-1 gp120 engineered outer domain eOD-GT8 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >6D2P_H|Chain B[auth H]|IOMAclass naive CLK31 Fab heavy chain|Homo sapiens (9606) QVQLVQSGAEVKKPGASVKVSCKASGYTFTGYYMHWVRQAPGQGLEWMGWINPNSGGTNYAQKFQGRVTMTRDTSISTAYMELSRLRSDDTAVYYCARSLGRDWFDPWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC |
Light Chain: L
Mutation: NULL
| >6D2P_L|Chain C[auth L]|IOMAclass naive CLK31 Fab light chain|Homo sapiens (9606) QSALTQPASVSGSPGQSITISCTGTSSDVGSYNLVSWYQQHPGKAPKLMIYEGSKRPSGVSNRFSGSKSGNTASLTISGLQAEDEADYYCCSYAGSVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: C
Mutation: NULL
| >6D2P_C|Chain A[auth C]|Germline-targeting HIV-1 gp120 engineered outer domain eOD-GT8|Homo sapiens (9606) TGDTITLPCRPAPPPHCSSNITGLILTRQGGYSNANTVIFRPSGGDWRDIARCQIAGTVVSTQLFLNGSLAEEEVVIRSEDWRDNAKSICVQLATSVEIACTGAGHCAISRAKWANTLKQIASKLREQYGAKTIIFKPSSGGDPEFVNHSFNCGGEFFYCASTQLFASTWFASTGTKHHHHHH |
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)
| H: TYR33 HIS35 GLU46 TRP47 TRP50 ASN52 ASN54 SER55 GLY56 GLY57 THR58 ASN59 TYR60 ALA61 GLN62 LYS63 GLN65 ARG72 GLY101 ARG102 L: SER3 VAL30 TYR94 ALA95 GLY96 SER97 VAL98 C: THR25 ARG26 GLN27 GLY28 GLY29 TYR30 SER31 THR35 ILE37 ARG39 GLY42 GLY43 ASP44 ASP47 ASP79 ARG81 ASP82 ASN83 ALA84 LYS85 LYS135 SER138 GLY139 GLY140 ASP141 PHE144 |
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)
