Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2924 |
| PDBID: | 6UJB |
| Chains: | EF_B |
| Organism: | Homo sapiens, Mus musculus |
| Method: | EM |
| Resolution (Å): | 3.51 |
| Reference: | 10.1016/j.cell.2019.12.030 |
| Antibody | |
| Antibody: | C6D4 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Integrin β8 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: E
Mutation: NULL
| >6UJB_E|Chain C[auth E]|C6D4 heavy chain Fab|Mus musculus (10090) QIQLVQSGPELKKPGETVKISCKASGYTFTDYSMHWVKQAPGKGLKWVARINTETGEPTFADDFRGRFAVSLETSASTAYLQINNLKNEDTATYFCAIFYYGRDSWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKK |
Light Chain: F
Mutation: NULL
| >6UJB_F|Chain D[auth F]|C6D4 light chain Fab|Mus musculus (10090) DIVMTQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPRLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNLLSFGAGTKLELKAADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: B
Mutation: NULL
| >6UJB_B|Chain B|Integrin beta-8|Homo sapiens (9606) EDNRCASSNAASCARCLALGPECGWCVQEDFISGGSRSERCDIVSNLISKGCSVDSIEYPSVHVIIPTENEINTQVTPGEVSIQLRPGAEANFMLKVHPLKKYPVDLYYLVDVSASMHNNIEKLNSVGNDLSRKMAFFSRDFRLGFGSYVDKTVSPYISIHPERIHNQCSDYNLDCMPPHGYIHVLSLTENITEFEKAVHRQKISGNIDTPEGGFDAMLQAAVCESHIGWRKEAKRLLLVMTDQTSHLALDSKLAGIVVPNDGNCHLKNNVYVKSTTMEHPSLGQLSEKLIDNNINVIFAVQGKQFHWYKDLLPLLPGTIAGEIESKAANLNNLVVEAYQKLISEVKVQVENQVQGIYFNITAICPDGSRKPGMEGCRNVTSNDEVLFNVTVTMKKCDVTGGKNYAIIKPIGFNETAKIHIHRNCSCQCEDNRGPKGKCVDETFLDSKCFQCDENKCHFDEDQFSSESCKSHKDQPVCSGRGVCVCGKCSCHKIKLGKVYGKYCEKDDFSCPYHHGNLCAGHGECEAGRCQCFSGWEGDRCQCPSAAAQHCVNSKGQVCSGRGTCVCGRCECTDPRSIGRFCEHCPTCYTACKENWNCMQCLHPHNLSQAILDQCKTSCALMEQQHYVDQTSECFSSPSYLRIFFIIFIVTFLIGLLKVLIIRQVILQWNSNKIKSSSDYRVSASKKDKLILQSVCTRAVTYRREKPEEIKMDISKLNAHETFRCNF |
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)
| E: GLN1 GLY26 TYR27 THR28 ASP31 TYR32 SER33 HIS35 ARG50 ASN52 PHE99 TYR100 TYR101 GLY102 ARG103 F: ASN31 ARG33 THR34 LYS36 TYR38 ALA40 TYR42 TYR55 TRP56 THR59 SER62 LYS95 SER97 TYR98 ASN99 LEU100 LEU101 B: ALA115 SER116 HIS118 ASN119 GLU122 LYS123 ASN125 SER159 ARG164 ASN167 CYS169 SER170 ASP171 TYR172 ASN173 LEU174 ASP175 HIS200 ARG201 GLN202 LYS203 ILE204 ASN207 ILE208 |
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)
