Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1801 |
| PDBID: | 5VCN |
| Chains: | DC_B |
| Organism: | Dermatophagoides pteronyssinus, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 3.00 |
| Reference: | 10.4049/jimmunol.1402199 |
| Antibody | |
| Antibody: | 5H8 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Der p 1 allergen |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: D
Mutation: NULL
| >5VCN_D|Chain D, F|HEAVY CHAIN OF FAB FRAGMENT OF MAB 5H8|Mus musculus (10090) EVQLVESGPGLVAPSQSLSITCTVSGFSLTGYGVNWVRQPPGKGLEWLGMIWGDGRIDYNLVRKSRLSISKDNSQSQIFLKMNSLQTDDTARYYCARAYQRYDYYAMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPRGPTIKPCPPCKCPAPNLLGGPSVFIFPPKIKDVLTITLTP |
Light Chain: C
Mutation: NULL
| >5VCN_C|Chain C, E|LIGHT CHAIN OF FAB FRAGMENT OF MAB 5H8|Mus musculus (10090) DIQMTQTTSSLSASLGDRVTISCRASQDITNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFSGSGSGTDYSLTISNLEQEDIATYFCQQGKTLPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNR |
Antigen
Chain: B
Mutation: NULL
| >5VCN_B|Chain A, B|PEPTIDASE 1|Dermatophagoides pteronyssinus (6956) TNACSINGNAPAEIDLRQMRTVTPIRMQGGCGSCWAFSGVAATESAYLAYRNQSLDLAEQELVDCASQHGCHGDTIPRGIEYIQHNGVVQESYYRYVAREQSCRRPNAQRFGISNYCQIYPPNANKIREALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGYQPNYHAVNIVGYSNAQGVDYWIVRNSWDTNWGDNGYGYFAANIDLMMIEEYPYVVIL |
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)
| C: THR30 TYR32 TYR50 ARG53 GLY91 LYS92 THR93 LEU94 D: SER28 THR30 GLY31 TYR32 GLY33 MET50 TRP52 GLY53 ASP54 ARG56 ASP58 ALA98 TYR99 GLN100 ARG101 TYR102 ASP103 TYR104 TYR105 B: TYR47 TYR50 ARG51 GLN53 SER54 LEU55 GLN84 HIS85 ASN86 GLY87 GLN90 SER92 TYR93 ASN107 ALA108 GLN109 ARG110 PHE111 GLY112 ILE113 SER114 ASN115 ILE221 LEU222 |
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)
