Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1824 |
| PDBID: | 5VKD |
| Chains: | HL_A |
| Organism: | Bundibugyo virus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 1.75 |
| Reference: | 10.1107/S2059798318007878 |
| Antibody | |
| Antibody: | 5VKD Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | ebolavirus nucleoprotein |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >5VKD_H|Chain B[auth H]|Fab Heavy Chain|Homo sapiens (9606) EISEVQLVESGGGLVQPGGSLRLSCAASGFNISYSSIHWVRQAPGKGLEWVASIYSYSGYTSYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCARSYWYHVGSWHYTGMDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHT |
Light Chain: L
Mutation: NULL
| >5VKD_L|Chain C[auth L]|Fab light chain|Homo sapiens (9606) SDIQMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQSSSSLITFGQGTKVEIKRTVAAPSVFIFPPSDSQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: A
Mutation: NULL
| >5VKD_A|Chain A|Nucleoprotein|Bundibugyo ebolavirus (565995) GAMANAQSEQSIAEMYQHILKTQGPFDAILYYHMMKEEPIIFSTSDGKEYTYPDSLEDEYPPWLSEKEAMNEDNRFITMDGQQFYWPVMNHRNKFMAILQHHR |
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: PHE30 ASN31 TYR34 TYR55 TYR57 SER58 TYR60 ARG101 TYR103 TRP104 TYR105 HIS106 VAL107 GLY108 TRP110 HIS111 L: VAL30 SER31 SER92 SER93 SER94 SER95 A: TYR652 GLN653 LEU656 LYS657 THR658 GLN659 GLY660 PRO661 PHE662 ILE665 TYR668 ILE676 ILE677 PHE678 SER679 THR680 SER681 ASP682 GLY683 ASP716 ARG728 PHE731 MET732 LEU735 GLN736 HIS738 ARG739 |
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)
