Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1551 |
| PDBID: | 5LHR |
| Chains: | B_A |
| Organism: | Mus musculus, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 2.30 |
| Reference: | 10.1038/s41598-017-03457-7 |
| Antibody | |
| Antibody: | Nb22 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Urokinase-type plasminogen activator |
| Antigen mutation: | Yes |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >5LHR_B|Chain B|Camelid-Derived Antibody Fragment Nb22|Vicugna pacos (30538) QVQLQESGGGLVQAGGSLRLSCAASGRTFSSYVMGWFRQAPGKEREFVAAISWSGGSTNYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTAVYYCAADLASSRDVSSWYWGQGTQVTVSSAAAYPYDVPDYGSHHHHHH |
Antigen
Chain: A
Mutation: C122A
| >5LHR_A|Chain A|Urokinase-type plasminogen activator|Mus musculus (10090) IVGGEFTEVENQPWFAAIYQKNKGGSPPSFKCGGSLISPCWVASAAHCFIQLPKKENYVVYLGQSKESSYNPGEMKFEVEQLILHEYYREDSLAYHNDIALLKIRTSTGQCAQPSRSIQTIALPPRFTDAPFGSDCEITGFGKESESDYLYPKNLKMSVVKLVSHEQCMQPHYYGSEINYKMLCAADPEWKTDSCKGDSGGPLICNIEGRPTLSGIVSWGRGCAEKNKPGVYTRVSHFLDWIQSHIG |
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: SER31 VAL33 PHE37 PHE47 ALA50 ILE51 SER52 TRP53 SER54 GLY56 SER57 THR58 ASN59 ASP99 ALA101 SER102 SER103 ARG104 ASP105 VAL106 SER107 TRP109 A: PHE40 LYS41 HIS57 CYS58 LEU97 TYR99 LYS143 SER145 GLU146 SER147 ASP148 TYR149 TYR151 ASP189 SER190 CYS191 LYS192 GLY193 SER195 VAL213 SER214 TRP215 GLY216 ARG217 GLY218 CYS220 GLU222 GLY226 |
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)
