Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 636 |
| PDBID: | 3QUM |
| Chains: | KM_Q |
| Organism: | Homo sapiens, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 3.20 |
| Reference: | 10.1016/j.jmb.2011.10.007 |
| Antibody | |
| Antibody: | 5D3D11 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Prostate-specific antigen |
| Antigen mutation: | No |
| Durg Target: | P07288; P07288; |
Sequence information
Antibody
Heavy Chain: K
Mutation: NULL
| >3QUM_K|Chain C[auth H], H[auth K]|Fab 5D3D11 Heavy Chain|Mus musculus (10090) QVQLQQSGPELVKPGASVKISCKVSGYAISSSWMNWVKQRPGQGLEWIGRIYPGDGDTKYNGKFKDKATLTVDKSSSTAYMQLSSLTSVDSAVYFCARDGYRYYFDYWGQGTSVTVSSAKTTAPPVYPLAPVCGDTTGSSVTLGCLVKGYFPESVTLLWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIVPRD |
Light Chain: M
Mutation: NULL
| >3QUM_M|Chain B[auth L], G[auth M]|Fab 5D3D11 Light Chain|Mus musculus (10090) DIVMTQTAPSVFVTPGESVSISCRSSKSLLHSNGNTYLYWFLQRPGQSPQLLIYRMSNLASGVPDRFSGSGSGTDFTLRISRVEAEDVGVYYCMQHLEYPVTFGAGTKVEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: Q
Mutation: NULL
| >3QUM_Q|Chain A[auth P], F[auth Q]|Prostate-specific antigen|Homo sapiens (9606) IVGGWECEKHSQPWQVLVASRGRAVCGGVLVHPQWVLTAAHCIRNKSVILLGRHSLFHPEDTGQVFQVSHSFPHPLYDMSLLKNRFLRPGDDSSHDLMLLRLSEPAELTDAVKVMDLPTQEPALGTTCYASGWGSIEPEEFLTPKKLQCVDLHVISNDVCAQVHPQKVTKFMLCAGRWTGGKSTCSGDSGGPLVCNGVLQGITSWGSEPCALPERPSLYTKVVHYRKWIKDTIVANP |
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)
| Chain residues position delta_SASA
: residuesposition M: SER27 ASN28 GLY29 ASN30 TYR32 TYR34 TYR49 ARG50 ASN53 HIS91 LEU92 K: VAL2 GLY26 TYR27 ALA28 SER30 SER31 TRP33 ASP54 ASP56 LYS58 LYS73 GLY96 TYR97 ARG98 TYR99 Q: ILE16 VAL17 TRP20 GLU21 CYS22 GLU23 LYS24 HIS25 SER26 GLN27 PRO28 TRP29 HIS70 SER71 HIS75 PRO76 ASP116 LYS119 VAL120 MET121 ASP122 CYS136 TYR137 LYS154 CYS157 ASP159 ASN202 GLY203 VAL208 |
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)
