Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1561 |
| PDBID: | 5M15 |
| Chains: | C_A |
| Organism: | Escherichia coli K-12, synthetic construct |
| Method: | XRD |
| Resolution (Å): | 1.90 |
| Reference: | 10.7554/eLife.34317 |
| Antibody | |
| Antibody: | L2_D09 synthetic-Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Maltose-binding periplasmic protein |
| Antigen mutation: | No |
| Durg Target: | P0AEX9 |
Sequence information
Antibody
Chain: C
Mutation: NULL
| >5M15_C|Chain C, D|Synthetic nanobody L2_D09, (a-MBP#3)|synthetic construct (32630) GPSQVQLVESGGGSVQAGGSLRLSCAASGKIHEIGYLGWFRQAPGKEREGVAALMTFQGQTYYADSVKGRFTVSLDNAKNTVYLQMNSLKPEDTALYYCAAAYWGKQSPLISWDYSYWGQGTQVTVSA |
Antigen
Chain: A
Mutation: NULL
| >5M15_A|Chain A, B|Maltose-binding periplasmic protein|Escherichia coli K-12 (83333) GPSKIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEALKDAQTPGSA |
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)
| C: PRO-1 SER0 GLN1 HIS29 GLU30 ILE31 GLY32 TYR33 GLN39 ARG45 MET52 PHE54 GLN55 GLN57 TYR59 TYR95 TYR100 TRP101 GLY102 LYS103 GLN104 SER105 PRO106 TRP110 TYR112 SER113 TYR114 TRP115 GLY116 GLN117 A: ASN12 GLY13 ASP14 LYS15 ASP41 LYS42 GLU44 GLU45 GLN49 TRP62 ASP65 ARG66 GLU111 ASN150 GLN152 GLU153 TYR155 PHE156 ASP209 TYR210 SER211 GLU214 TRP230 MET330 PRO334 SER337 ALA338 TRP340 TYR341 ARG344 THR345 ILE348 ASN349 |
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)
