Complex | |
AACDB_ID: | 1989 |
PDBID: | 5YWY |
Chains: | HL_A |
Organism: | Homo sapiens, Mus musculus |
Method: | XRD |
Resolution (Å): | 3.20 |
Reference: | 10.1038/s41589-018-0131-3 |
Antibody | |
Antibody: | 001 Fab |
Antibody mutation: | No |
INN (Clinical Trial): | |
Antigen | |
Antigen: | human prostaglandin E receptor EP4 |
Antigen mutation: | Yes |
Durg Target: |
Antibody
Heavy Chain: H
Mutation: NULL
>5YWY_H|Chain B[auth H]|Heavy chain of Fab fragment|Mus musculus (10090) MEWRWIFLFLLSGTTGVHSEIQLQQSGPELVKPGASVKVSCKASGFPFSTYNIYWVIQSHGKSLEWIGYIDPYNGGTSYNQKFRGKATLTVDKSSSTAYMHLNSLTSEDSAVYYCARRWYTYDGDWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPRGPTIKPCPPCKCP |
Light Chain: L
Mutation: NULL
>5YWY_L|Chain C[auth L]|Light chain of Fab fragment|Mus musculus (10090) MDMRTPAQFLGILLLWFPGIKCDIKMTQSPSSMYVSLGERVTITCKASQDINRYLSWFQQKPGKSPKTLIYRANRMLDGVPSRFSGSGSGQDYSLTISSLEYEDMGNYYCLQYDEFPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: A
Mutation: N7Q/A62L/G106R/N177Q
>5YWY_A|Chain A|Prostaglandin E2 receptor EP4 subtype,Prostaglandin E2 receptor EP4 subtype|Homo sapiens (9606) GTSPGVQSSASLSPDRLNSPVTIPAVMFIFGVVGNLVAIVVLCKSRKEQKETTFYTLVCGLLVTDLLGTLLVSPVTIATYMKGQWPGGQPLCEYSTFILLFFSLSRLSIICAMSVERYLAINHAYFYSHYVDKRLAGLTLFAVYASNVLFCALPNMGLGSSRLQYPDTWCFIDWTTQVTAHAAYSYMYAGFSSFLILATVLCNVLVCGALLRMHRQFFRRIAGAEIQMVILLIATSLVVLICSIPLVVRVFVNQLYQPSLEREVSKNPDLQAIRIASVNPILDPWIYILLRKTVLSKAIEKIKCLFCRIGGSRRERSGQHCSDSLEENLYFQ |
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: PRO47 PHE48 SER49 THR50 TYR73 ASN74 ARG118 TRP119 TYR120 THR121 TYR122 ASP123 GLY124 ASP125 L: ARG53 TYR54 ARG72 TYR113 ASP114 PHE118 A: PRO20 ILE23 THR79 TYR80 GLY83 GLN84 TRP85 GLY87 GLY88 GLN89 CYS92 ARG162 LEU163 TYR165 PRO166 ASP167 THR168 LEU302 ARG304 GLU305 VAL306 ARG316 |
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)