Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5021 |
| PDBID: | 7TER |
| Chains: | HL_B |
| Organism: | Rattus norvegicus, Mus musculus |
| Method: | EM |
| Resolution (Å): | 5.23 |
| Reference: | 10.1038/s41467-022-28559-3 |
| Antibody | |
| Antibody: | anti-GluN2B Fab5 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Glutamate receptor ionotropic, NMDA 2B |
| Antigen mutation: | No |
| Durg Target: | Q13224 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7TER_H|Chain E[auth H], G[auth M]|Fab5 heavy chain|Mus musculus (10090) DVKLQESGGGSVKLGGSLKLSCVVSGFTFSTYYMSWVRQTPEKRLELVAVINSNGGNTYYPDNVKGRFTISRDNAENTLYLQMSSLKSEDTALYYCARRDYDGFAMDYWGQGTSVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPRDC |
Light Chain: L
Mutation: NULL
| >7TER_L|Chain F[auth L], H[auth N]|Fab5 light chain|Mus musculus (10090) DIQLTQSPASLAVSLGQRATISCRASQSVSTSRYSYMHWYQHKPGQPPKLLIKYASNLESGVPARFSGSGSGTDFTLNIHPVEEEDTATYYCQHSWENPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNR |
Antigen
Chain: B
Mutation: NULL
| >7TER_B|Chain B, D|Glutamate receptor ionotropic, NMDA 2B|Rattus norvegicus (10116) MGTMRLFLLAVLFLFSFARATGWSHPQFEKGGGSGGGSGGSAWSHPQFEKGALVPRGRSQKSPPSIGIAVILVGTSDEVAIKDAHEKDDFHHLSVVPRVELVAMNETDPKSIITRICDLMSDRKIQGVVFADDTDQEAIAQILDFISAQTLTPILGIHGGSSMIMADKDESSMFFQFGPSIEQQASVMLNIMEEYDWYIFSIVTTYFPGYQDFVNKIRSTIENSFVGWELEEVLLLDMSLDDGDSKIQNQLKKLQSPIILLYCTKEEATYIFEVANSVGLTGYGYTWIVPSLVAGDTDTVPSEFPTGLISVSYDEWDYGLPARVRDGIAIITTAASDMLSEHSFIPEPKSSCYNTHEKRIYQSNMLNRYLINVTFEGRDLSFSEDGYQMHPKLVIILLNKERKWERVGKWKDKSLQMKYYVWPRMCPETEEQEDDHLSIVTLEEAPFVIVESVDPLSGTCMRNTVPCQKRIISENKTDEEPGYIKKCCKGFCIDILKKISKSVKFTYDLYLVTNGKHGKKINGTWNGMIGEVVMKRAYMAVGSLTINEERSEVVDFSVPFIETGISVMVSRSNGTVSPSAFLEPFSACVWVMMFVMLLIVSAVAVFVFEYFSPVGYNRSLADGREPGGPSVTIGKAIWLLWGLVFNNSVPVQNPKGTTSKIMVSVWAFFAVIFLASYTANLAAFMIQEEYVDQVSGLSDKKFQRPNDFSPPFRFGTVPNGSTERNIRNNYAEMHAYMGKFNQRGVDDALLSLKTGKLDAFIYDAAVLNYMAGRDEGCKLVTIGSGKVFASTGYGIAIQKDSGWKRQVDLAILQLFGDGEMEELEALWLTGICHNEKNEVMSSQLDIDNMAGVFYMLGAAMALSLITFISEHLFYWQFRHSFMG |
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: SER30 THR31 TYR32 TYR33 VAL50 ILE51 ASN52 SER53 ASN57 THR58 TYR59 TYR101 ASP102 GLY103 PHE104 L: VAL29 THR31 SER32 ARG33 TYR34 SER35 TYR36 TYR54 TRP96 GLU97 ASN98 TYR100 B: SER63 VAL64 GLU139 SER140 MET142 MET307 LEU308 SER309 GLU310 HIS311 SER312 PHE313 ILE314 PRO315 GLU316 ILE329 TYR330 GLN331 SER332 ASN333 MET334 ARG337 TYR338 |
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)
