Research workbench
Structure of alzheimer ab peptide in complex with an engineered binding protein
Analyse Structure of alzheimer ab peptide in complex with an engineered binding protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OTK
- Type
- protein
- Length
- 111 residues
- Chains
- 3
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Amyloid beta A4 protein; ZAB3 affibody dimer
- UniProt
- P05067
- Pockets
- 2 · best druggability 0.46
Structure
solution nmr · 2 distinct chains · 44% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Amyloid beta A4 protein | protein | 25 | 12% helix, 68% strand | P05067 |
| E, F | ZAB3 affibody dimer | protein | 43 | 63% helix, 9% strand | — |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 107 | 0.46 | 0.79 | 17 | empty |
| 2 | 80 | 0.42 | 0.79 | 14 | empty |
Interfaces
3 interfaces between chains.
- C–F · 581 Ų buried · 6 hydrogen bonds · protein-protein
- C–E · 565 Ų buried · 9 hydrogen bonds · protein-protein
- E–F · 371 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 2OTK · Structure of Alzheimer Ab peptide in complex with an engineered binding protein · the same entry in another collection · chain C against C, TM-score 1.00
- P05067 · AlphaFold monomer V2.0 prediction for amyloid-beta precursor protein (P05067) · a predicted model of the same protein · chain C against A, TM-score 0.38
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P05067
- Elsewhere: RCSB PDB 2OTK · PDBe 2OTK · UniProt P05067
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