Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2594 |
| PDBID: | 6OGE |
| Chains: | CB_A |
| Organism: | Homo sapiens |
| Method: | EM |
| Resolution (Å): | 4.36 |
| Reference: | 10.1371/journal.pone.0216095 |
| Antibody | |
| Antibody: | Pertuzumab Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | Pertuzumab(Approved) |
| Antigen | |
| Antigen: | Receptor tyrosine-protein kinase erbB-2 |
| Antigen mutation: | No |
| Durg Target: | P04626; P04626; |
Sequence information
Antibody
Heavy Chain: C
Mutation: NULL
| >6OGE_C|Chain C|Pertuzumab FAB HEAVY CHAIN|Homo sapiens (9606) EVQLVESGGGLVQPGGSLRLSCAASGFTFTDYTMDWVRQAPGKGLEWVADVNPNSGGSIYNQRFKGRFTLSVDRSKNTLYLQMNSLRAEDTAVYYCARNLGPSFYFDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC |
Light Chain: B
Mutation: NULL
| >6OGE_B|Chain B|Pertuzumab FAB LIGHT CHAIN|Homo sapiens (9606) DIQMTQSPSSLSASVGDRVTITCKASQDVSIGVAWYQQKPGKAPKLLIYSASYRYTGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYYIYPYTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: A
Mutation: NULL
| >6OGE_A|Chain A|Receptor tyrosine-protein kinase erbB-2|Homo sapiens (9606) TQVCTGTDMKLRLPASPETHLDMLRHLYQGCQVVQGNLELTYLPTNASLSFLQDIQEVQGYVLIAHNQVRQVPLQRLRIVRGTQLFEDNYALAVLDNGDPLNNTTPVTGASPGGLRELQLRSLTEILKGGVLIQRNPQLCYQDTILWKDIFHKNNQLALTLIDTNRSRACHPCSPMCKGSRCWGESSEDCQSLTRTVCAGGCARCKGPLPTDCCHEQCAAGCTGPKHSDCLACLHFNHSGICELHCPALVTYNTDTFESMPNPEGRYTFGASCVTACPYNYLSTDVGSCTLVCPLHNQEVTAEDGTQRCEKCSKPCARVCYGLGMEHLREVRAVTSANIQEFAGCKKIFGSLAFLPESFDGDPASNTAPLQPEQLQVFETLEEITGYLYISAWPDSLPDLSVFQNLQVIRGRILHNGAYSLTLQGLGISWLGLRSLRELGSGLALIHHNTHLCFVHTVPWDQLFRNPHQALLHTANRPEDECVGEGLACHQLCARGHCWGPGPTQCVNCSQFLRGQECVEECRVLQGLPREYVNARHCLPCHPECQPQNGSVTCFGPEADQCVACAHYKDPPFCVARCPSGVKPDLSYMPIWKFPDEEGACQPCPINCTHSCVDLDDKGCPA |
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)
| B: TYR49 SER50 TYR53 TYR55 TYR94 C: THR28 THR30 ASP31 TYR32 THR33 PRO52 ASN53 SER54 GLY55 SER57 ILE58 TYR59 GLN61 LYS64 VAL71 ASP72 ARG73 SER74 LYS75 ARG94 LEU96 GLY97 PRO98 TYR99 A: LYS150 ASN176 ASN177 LEU256 HIS257 PHE258 HIS267 CYS268 ALA270 LEU271 TYR274 THR276 ASP277 THR278 PHE279 ARG288 THR290 GLY292 THR306 ASP307 VAL308 GLY309 SER310 THR312 VAL314 PRO316 LEU317 HIS318 ASN319 LYS333 CYS334 SER335 LYS336 PRO337 |
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)
