Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6276 |
| PDBID: | 8GPX |
| Chains: | HL_E |
| Organism: | Yellow fever virus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.80 |
| Reference: | 10.1016/j.xinn.2022.100323 |
| Antibody | |
| Antibody: | YD73 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Yellow fever virus soluble E protein (YFV-sE) |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >8GPX_H|Chain B[auth H]|YD73Fab_H|Homo sapiens (9606) QVQLVQSGAEVKKPGASVKVSCKASGYTFIAYGISWVRQAPGQGLEWMGWISAHNGNTNYAQKFQGRVTVTTDTTTRTAFMELRNLRSDDTAVYYCARAPWEYNYRSSGYYDSPYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEP |
Light Chain: L
Mutation: NULL
| >8GPX_L|Chain C[auth L]|YD73Fab_K|Homo sapiens (9606) EIVLTQSPGTLSLSPGERATLSCRASQSVVSTYLAWYQQKPGQAPRLLIYDTSTRATGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQHYDSSPPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGECS |
Antigen
Chain: E
Mutation: NULL
| >8GPX_E|Chain A[auth E]|Envelope protein|Yellow fever virus (11089) AHCIGITDRDFIEGVHGGTWVSATLEQDKCVTVMAPDKPSLDISLQTVAIDGPAEARKVCYSAVLTHVKINDKCPSTGEAHLAEENDGDNACKRTYSDRGWGNGCGLFGKGSIVACAKFTCAKSMSLFEVDQTKIQYVIRAQLHVGAKQENWNTDIKTLKFDALSGSQEAEFTGYGKATLECQVQTAVDFGNSYIAEMEKDSWIVDRQWAQDLTLPWQSGSGGIWREMHHLVEFEPPHAATIRVLALGNQEGSLKTALTGAMRVTKDENDNNLYKLHGGHVSCRVKLSALTLKGTSYKMCTDKMSFVKNPTDTGHGTVVMQVKVPKGAPCKIPVIVADDLTAAVNKGILVTVNPIASTNDDEVLIEVNPPFGDSYIIVGTGDSRLTYQWHKEGSSIGK |
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: THR28 ILE30 ALA31 TYR32 HIS54 THR74 THR75 TRP101 GLU102 ASN104 TYR105 ARG106 SER107 SER108 GLY109 TYR110 TYR111 ASP112 L: VAL30 TYR50 ASP51 E: VAL64 LEU65 THR66 HIS67 VAL68 LYS69 ILE70 ASN71 ASP72 ARG99 TRP101 GLY102 ASN103 GLY104 HIS238 ALA239 ALA240 THR241 ILE242 ARG243 VAL244 LEU245 ALA246 |
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)
