Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3216 |
| PDBID: | 6XOC |
| Chains: | AB_L |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.45 |
| Reference: | 10.1016/j.celrep.2021.109084 |
| Antibody | |
| Antibody: | anti-idiotype iv4 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | glVRC01 Fab light chain |
| Antigen mutation: | No |
| Durg Target: | P01834 |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >6XOC_A|Chain A|Iv4 Fab Heavy Chain|Homo sapiens (9606) QVQLQQPGAELVKPGASVKLSCKASAYTFTSYWINWVKQRPGQGLEWIGNIYPGSSSTNYNEKFKTKATLTVDRSSRTAYMQLSSLTSDDSAVYYCARLDSGDWYYYGLDYWGQGTSVTVFNQIKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEP |
Light Chain: B
Mutation: NULL
| >6XOC_B|Chain B|IV4 Fab Light Chain|Homo sapiens (9606) DVLMTQTPLSLPVSLGDQASISCRSSQNIVHYNGNTYLEWYLQKPGQSPKLLIYQVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYYCFQGSHVPFTFGSGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRG |
Antigen
Chain: L
Mutation: NULL
| >6XOC_L|Chain D[auth L]|iGL-VRC01 Fab Light Chain|Homo sapiens (9606) EIVLTQSPATLSLSPGERATLSCRASQSVSSYLAWYQQKPGQAPRLLIYDASNRATGIPARFSGSGSGTDFTLTISSLEPEDFAVYYCQQYEFFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNR |
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: TRP33 ASN50 GLY53 SER54 SER55 SER56 THR57 ASN58 TYR59 GLU61 LEU95 SER97 GLY98 ASP99 B: TYR27 ASN28 HIS93 VAL94 PRO95 PHE96 L: GLU1 ILE2 ARG24 SER26 GLN27 SER28 VAL29 SER30 SER31 TYR32 SER67 GLY68 THR69 ASP70 TYR91 GLU92 PHE93 |
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)
