Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1548 |
| PDBID: | 5LHN |
| Chains: | B_A |
| Organism: | Mus musculus, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 2.55 |
| Reference: | 10.1038/s41598-017-03457-7 |
| Antibody | |
| Antibody: | Nb7 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
| >5LHN_B|Chain B|Camelid-Derived Antibody Fragment Nb7|Vicugna pacos (30538) QVQLQESGGGLVQPGGSLRLSCAASGFTLGYYAIGWFRRAPGKEREGVSCISSSGGSTNYADSVKGRFTISRDNAKNTVDLQMNSLKPEDTAIYYCAAEWVPPGYGATVQALCNNAGYGMEYWGKGTQVTVSSAAAYPYDVPDYGSHHHHHH |
Antigen
Chain: A
Mutation: C122A
| >5LHN_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: GLN1 VAL2 GLY26 PHE27 TYR31 TYR32 GLU99 TRP100 VAL101 PRO102 PRO103 GLY104 TYR105 GLY106 THR108 GLN110 ALA111 LEU112 ASN115 TYR118 GLY119 MET120 GLU121 TYR122 A: TYR34 LYS36 PRO37 PRO38 TYR67 LEU68 GLY69 GLN70 SER71 LYS72 GLU73 SER74 SER75 TYR76 ASN77 PRO78 GLY79 GLU80 MET81 LYS82 GLU84 PHE141 LYS153 ASN154 LEU155 |
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)
