Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1374 |
| PDBID: | 5GGT |
| Chains: | HL_A |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.80 |
| Reference: | 10.1038/ncomms13354 |
| Antibody | |
| Antibody: | BMS-936559 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Programmed cell death 1 ligand 1 |
| Antigen mutation: | No |
| Durg Target: | Q9NZQ7 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >5GGT_H|Chain B[auth H]|IgG H chain|Homo sapiens (9606) QVQLVQSGAEVKKPGSSVKVSCKTSGDTFSTYAISWVRQAPGQGLEWMGGIIPIFGKAHYAQKFQGRVTITADESTSTAYMELSSLRSEDTAVYFCARKFHFVSGSPFGMDVWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHHHHHH |
Light Chain: L
Mutation: NULL
| >5GGT_L|Chain C[auth L]|IGK@ protein|Homo sapiens (9606) EIVLTQSPATLSLSPGERATLSCRASQSVSSYLAWYQQKPGQAPRLLIYDASNRATGIPARFSGSGSGTDFTLTISSLEPEDFAVYYCQQRSNWPTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: A
Mutation: NULL
| >5GGT_A|Chain A|Programmed cell death 1 ligand 1|Homo sapiens (9606) AFTVTVPKDLYVVEYGSNMTIECKFPVEKQLDLAALIVYWEMEDKNIIQFVHGEEDLKVQHSSYRQRARLLKDQLSLGNAALQITDVKLQDAGVYRCMISYGGADYKRITVKVNAPY |
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: THR31 TYR32 ILE52 ILE54 PHE55 LYS57 HIS59 LYS99 HIS101 SER104 GLY105 SER106 PRO107 PHE108 L: TYR32 ARG91 SER92 ASN93 TRP94 A: PHE19 GLN47 ASP49 LEU50 ALA51 ALA52 ILE54 TYR56 GLU58 ASN63 GLN66 VAL68 HIS69 GLU71 ARG113 MET115 ILE116 SER117 GLY119 GLY120 ALA121 ASP122 TYR123 |
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)
