Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4538 |
| PDBID: | 7P14 |
| Chains: | B_A |
| Organism: | Rattus norvegicus, synthetic construct |
| Method: | EM |
| Resolution (Å): | 3.66 |
| Reference: | 10.7554/eLife.69800 |
| Antibody | |
| Antibody: | 7P14 synthetic-Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | full-length XK-related protein |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >7P14_B|Chain B|Sybody|synthetic construct (32630) SQVQLVESGGGSVQAGGSLRLSCAASGNIADIYYLGWFRQAPGKEREGVAALITYNGRTYYADSVKGRFTVSLDNAKNTVYLQMNSLKPEDTALYYCAAAYNGLIAAPLKVTRYWYWGQGTQVTVS |
Antigen
Chain: A
Mutation: NULL
| >7P14_A|Chain A|XK-related protein|Rattus norvegicus (10116) MKYTICNFMMSVLGIIIYVTDLVADIVLTVRYFYDGQYVFGVLTLSFVLCGTLIVHCFSYSWLKDDLKKAGGENEHYFLLLHCLQGGVFTRYWFVLRTGYHVVFKHSHRTSNFMEEQTDPHKEAIDMATDLSMLRLFETYLEGCPQLILQLYAFLERGQANFSQYMVIMVSCCAISWSTVDYQIALRKSLPDKNLLRGFWPKLTYLFYKLFTLLSWMLSVVLLLFVDVRTVLLLLLFLWTVGFIWAFINHTQFCNSLSMEFLYRLVVGFILVFTFFNIKGQNTKCPMSCYYTVRVLGTLGILTVFWIYPLSIFNSDYFIPISATIVLSLLFGIIFLGVYYGTYHPNINAGTQHDEPDGKAPQRDCRIRYFLMDA |
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: ASP36 TYR38 TYR106 ASN107 GLY108 LEU109 ILE110 ALA111 ALA112 LYS115 THR117 ARG118 TYR119 TRP120 TRP122 A: ASP35 GLN37 PHE40 TYR152 LEU155 GLU156 ARG157 GLY158 GLN159 ALA160 ASN161 GLN164 LEU222 PHE225 SER311 ILE312 PHE313 ASN314 ASP316 TYR317 PHE318 ILE321 |
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)
