Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3618 |
| PDBID: | 7DNL |
| Chains: | HL_B |
| Organism: | Mus musculus, human papillomavirus 58 |
| Method: | EM |
| Resolution (Å): | 4.19 |
| Reference: | 10.1128/JVI.01587-20 |
| Antibody | |
| Antibody: | A4B4 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | human papillomavirus type 58 major capsid protein L1 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7DNL_H|Chain B[auth H]|The heavy chain of 2H3 Fab fragment|Mus musculus (10090) QVTLKESGPGILQPSQTLSLTCSFSGFSLSTSGMGVGWIRQPSGKGLEWLAHIWWNDDKNYHPALKSRLTISKDTSSNRVFLNIASVDTADTATYYCARIHYVTDALDYWGQGTSVTVSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKI |
Light Chain: L
Mutation: NULL
| >7DNL_L|Chain A[auth L]|The light chain of A4B4 Fab fragment|Mus musculus (10090) DIVMSQSPSSLAVSVGEKVTMSCKSSQSLLYSSIQKNYLAWYQQKPGQSPKLLIYWASIRESGVPDRFTGSGSGTDFTLTISSVKAEDLAVYYCQRYYGYPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: B
Mutation: NULL
| >7DNL_B|Chain C[auth A], D[auth B], E[auth C], F[auth D], G[auth E]|Major capsid protein L1|Human papillomavirus type 58 (10598) MVLILCCTLAILFCVADVNVFHIFLQMSVWRPSEATVYLPPVPVSKVVSTDEYVSRTSIYYYAGSSRLLAVGNPYFSIKSPNNNKKVLVPKVSGLQYRVFRVRLPDPNKFGFPDTSFYNPDTQRLVWACVGLEIGRGQPLGVGVSGHPYLNKFDDTETSNRYPAQPGSDNRECLSMDYKQTQLCLIGCKPPTGEHWGKGVACNNNAAATDCPPLELFNSIIEDGDMVDTGFGCMDFGTLQANKSDVPIDICNSTCKYPDYLKMASEPYGDSLFFFLRREQMFVRHFFNRAGKLGEAVPDDLYIKGSGNTAVIQSSAFFPTPSGSIVTSESQLFNKPYWLQRAQGHNNGICWGNQLFVTVVDTTRSTNMTLCTEVTKEGTYKNDNFKEYVRHVEEYDLQFVFQLCKITLTAEIMTYIHTMDSNILEDWQFGLTPPPSASLQDTYRFVTSQAITCQKTAPPKEKEDPLNKYTFWEVNLKEKFSADLDQFPLGRKFLLQSGLKAKPRLKRSAPTTRAPSTKRKKVKK |
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)
| L: ILE34 LYS36 TYR38 TRP56 H: SER32 GLY33 MET34 GLY35 TRP54 TRP55 ASN56 ASP57 ILE100 HIS101 TYR102 VAL103 B: ILE52 SER54 PRO55 ASN56 ASN57 ASN58 LYS59 LYS60 LEU62 LYS360 |
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)
