Research workbench
Crystal structure of the intracellular domain of human app (T668E mutant) in complex with FE65-PTB2
Analyse Crystal structure of the intracellular domain of human app (T668E mutant) in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3DXD
- Type
- protein
- Length
- 307 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Amyloid beta A4 protein-binding family B member 1; Amyloid beta A4 protein
- UniProt
- O00213, P05067
- Pockets
- 2 · best druggability 0.33
Structure
x-ray diffraction · 4 distinct chains · 36% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Amyloid beta A4 protein-binding family B member 1 | protein | 131 | 29% helix, 40% strand | O00213 |
| B | Amyloid beta A4 protein | protein | 27 | 67% helix, 7% strand | P05067 |
| C | Amyloid beta A4 protein-binding family B member 1 | protein | 123 | 32% helix, 44% strand | O00213 |
| D | Amyloid beta A4 protein | protein | 26 | 62% helix, 8% strand | P05067 |
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 | 91 | 0.33 | 0.73 | 16 | empty |
| 2 | 73 | 0.29 | 0.73 | 16 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1109 Ų buried · 13 hydrogen bonds · protein-protein
- C–D · 1090 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 678 Ų buried · 15 hydrogen bonds · protein-protein
- A–D · 29 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3DXD · Crystal structure of the intracellular domain of human APP (T668E mutant) in complex with… · the same entry in another collection · chain D against D, TM-score 1.00
- O00213 · AlphaFold monomer V2.0 prediction for amyloid-beta A4 precursor protein-binding family B… · a predicted model of the same protein · chain A against A, TM-score 0.97
- P05067 · AlphaFold monomer V2.0 prediction for amyloid-beta precursor protein (P05067) · a predicted model of the same protein · chain B against A, TM-score 0.47
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 O00213
- Every structure of UniProt P05067
- Elsewhere: RCSB PDB 3DXD · PDBe 3DXD · UniProt O00213 · UniProt P05067
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