Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7071 |
| PDBID: | 5B3J |
| Chains: | HL_D |
| Organism: | Xenopus laevis, Rattus norvegicus, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 2.90 |
| Reference: | 10.1038/nature17679 |
| Antibody | |
| Antibody: | 17 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Glutamate receptor ionotropic, N-methyl-d-aspartate (NMDA) 2B |
| Antigen mutation: | Yes |
| Durg Target: | Q13224 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >5B3J_H|Chain D[auth E], G[auth H]|Fab, heavy chain|Mus musculus (10090) EVKLVESGGGLVQPGGSLKLSCAASGITFSSYSMSWVRQTPEKRLEWVAYISNGGSGTYYPDTVKGRFTISRDNAKNSLYLQMSSLRSEDTAMYYCARPSRGGSSYWYFDVWGAGTTVTVSSAKTTPPSVYPLAPGSAASTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPRDC |
Light Chain: L
Mutation: NULL
| >5B3J_L|Chain F, H[auth L]|Fab, light chain|Mus musculus (10090) DIQMTQSPSSLSASLGGKVTITCKASQDINKYIAWYQHKPGKGPRLLIQYTSTLQPDIPSRFTGSGSGRDYSFSISNLEPEDIAIYYCLQYDNLYTFGGGTQLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: D
Mutation: N318D
| >5B3J_D|Chain C, E[auth D]|Glutamate receptor ionotropic, NMDA 2B|Rattus norvegicus (10116) SPPSIGIAVILVGTSDEVAIKDAHEKDDFHHLSVVPRVELVAMNETDPKSIITRICDLMSDRKIQGVVFADDTDQEAIAQILDFISAQTLTPILGIHGGSSMIMADKDESSMFFQFGPSIEQQASVMLNIMEEYDWYIFSIVTTYFPGYQDFVNKIRSTIENSFVGWELEEVLLLDMSLDDGDSKIQNQLKKLQSPIILLYCTKEEATYIFEVANSVGLTGYGYTWIVPSLVAGDTDTVPSEFPTGLISVSYDEWDYGLPARVRDGIAIITTAASDMLSEHSFIPEPKSSCYNTHEKRIYQSNMLNRYLINVTFEGRDLSFSEDGYQMHPKLVIILLNKERKWERVGKWKDKSLQMKYYVWPRM |
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: THR28 SER30 SER31 TYR32 TYR50 SER52 ASN53 GLY54 SER56 GLY57 TYR59 ARG101 GLY102 GLY103 SER104 SER105 TYR106 TRP107 L: ASN30 LYS31 TYR32 TYR50 TYR91 ASP92 ASN93 LEU94 D: SER31 PRO32 PRO33 SER34 ASP52 HIS54 GLU55 LYS56 ASP57 ASP58 PHE59 HIS60 HIS61 VAL65 PRO66 ARG67 VAL68 GLU69 ASP91 ARG92 LYS93 |
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)
