Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7412 |
| PDBID: | 6C5V |
| Chains: | HL_A |
| Organism: | human gammaherpesvirus 4, Epstein-barr virus strain ag876, Homo sapiens |
| Method: | EM |
| Resolution (Å): | 4.80 |
| Reference: | 10.1016/j.immuni.2018.03.026 |
| Antibody | |
| Antibody: | AMMO1 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Epstein-Barr virus (EBV) envelope glycoprotein H |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >6C5V_H|Chain D[auth H]|Antibody Fab AMMO1 heavy chain|Homo sapiens (9606) QVQLVQSGADVKKPGASVKVSCKASGYTFIHFGISWVRQAPGQGLEWMGWIDTNNGNTNYAQSLQGRVTMTTDTSTGTAYMELRSLSTDDTAVYFCARALEMGHRSGFPFDYWGQGVLVTVSPASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSC |
Light Chain: L
Mutation: NULL
| >6C5V_L|Chain E[auth L]|Antibody Fab AMMO1 light chain|Homo sapiens (9606) SYELTQPPSVSVAPGQRATITCGGHNIGAKNVHWYQQKPGQAPVLVIQYDSDRPSGIPERFSGSNSGSTATLTISRVEAGDEADYYCQVWDSGRGHPLYVFGGGTKVTVLGQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: A
Mutation: NULL
| >6C5V_A|Chain A|Envelope glycoprotein H|Human herpesvirus 4 (10376) MDAMKRGLCCVLLLCGAVFVSPSASSLSEVKLHLDIEGHASHYTIPWTELMAKVPGLSPEALWREANVTEDLASMLNRYKLIYKTSGTLGIALAEPVDIPAVSEGSMQVDASKVHPGVISGLNSPACMLSAPLEKQLFYYIGTMLPNTRPHSYVFYQLRCHLSYVALSINGDKFQYTGAMTSKFLMGTYKRVTEKGDEHVLSLVFGKTKDLPDLRGPFSYPSLTSAQSGDYSLVIVTTFVHYANFHNYFVPNLKDMFSRAVTMTAASYARYVLQKLVLLEMKGGCREPELDTETLTTMFEVSVAFFKVGHAVGETGNGCVDLRWLAKSFFELTVLKDIIGICYGATVKGMQSYGLERLAAMLMATVKMEELGHLTTEKQEYALRLATVGYPKAGVYSGLIGGATSVLLSAYNRHPLFQPLHTVMRETLFIGSHVVLRELRLNVTTQGPNLALYQLLSTALCSALEIGEVLRGLALGTESGLFSPCYLSLRFDLTRDKLLSMAPQEATLDQAAVSYAVDGFLGRLSLEREDRDAWHLPAYKCVDRLDKVLMIIPLINVTFIISSDREVRGSALYEASTTYLSSSLFLSPVIMNKCSQGAVAGEPRQIPKIQNFTRTQKSCIFCGFALLSYDEKEGLETTTYITSQEVQNSILSSNYFDFDNLHVHYLLLTTNGTVMEIAGLYEERAHGSGSGHHHHHH |
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: HIS31 PHE32 ARG94 LEU96 GLU97 MET98 GLY99 HIS100 ARG101 SER102 GLY103 PHE104 ASP107 L: ASN26 GLY28 ALA29 LYS30 ASN31 GLN48 TYR49 ASP50 ASP52 ASN65 GLY67 A: ALA66 LEU69 ASN70 TYR72 LYS73 TYR76 LYS77 THR78 SER79 GLY80 THR81 PRO214 SER215 PHE232 VAL233 TYR235 ALA236 HIS239 ASN240 VAL243 |
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)
