Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1803 |
| PDBID: | 5VCO |
| Chains: | BA_F |
| Organism: | Mus musculus, Dermatophagoides pteronyssinus |
| Method: | XRD |
| Resolution (Å): | 2.74 |
| Reference: | 10.4049/jimmunol.1402199 |
| Antibody | |
| Antibody: | 10B9 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Der p 1 allergen |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: B
Mutation: NULL
| >5VCO_B|Chain B, D|HEAVY CHAIN OF FAB FRAGMENT OF 10B9 ANTIBODY|Mus musculus (10090) EVQLVESGPSLVKPSQTLSLTCSVTGDSITSGFWNWIRKFPGNKLEFMGYITYSGTSYYKPSLKSRISITRDTSKNQYFLQLNSVTAEDTATYYCARRGFLTTVNYYAMDYWGQGTSVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPR |
Light Chain: A
Mutation: NULL
| >5VCO_A|Chain A, C|LIGHT CHAIN OF FAB FRAGMENT OF 10B9 ANTIBODY|Mus musculus (10090) DIQMTQTTSSLSASLGDGITISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFSGSGSGTDYSLTISNLEQEDIATYFCQQGNTLPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNR |
Antigen
Chain: F
Mutation: NULL
| >5VCO_F|Chain E, F|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)
| A: SER30 TYR32 TYR50 ARG53 GLY91 ASN92 LEU94 TYR96 B: THR30 SER31 GLY32 PHE33 TYR50 THR52 TYR53 SER54 THR56 ARG98 GLY99 PHE100 LEU101 THR102 VAL104 ASN105 TYR106 TYR107 F: PRO11 ALA12 GLU13 ASP15 ARG17 GLN18 ARG20 GLY155 ARG156 THR157 ILE158 TYR177 SER178 ASN179 ALA180 GLN181 GLY182 ASP184 TYR185 ILE187 ASP198 ASN199 TYR203 |
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)
