MolNFT v1 · #60993 · protein
Crystal structure of the human FE65-PTB1 domain (trigonal crystal form)
3D8E · Amyloid beta A4 precursor protein-binding family B member 1: “Crystal structure of the human FE65-PTB1 domain (trigonal crystal form)”. X-ray diffraction, 5 pockets (best druggability 0.69). MolNFT v1 #60993 on GenesisL1: 3D…
- PDB
- 3D8E
- Type
- protein
- Length
- 487 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Amyloid beta A4 precursor protein-binding family B member 1
- UniProt
- O00213
- Pockets
- 5 · best druggability 0.69
Structure
x-ray diffraction · 4 distinct chains · 28% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Amyloid beta A4 precursor protein-binding family B member 1 | protein | 123 | 28% helix, 43% strand | O00213 |
| B | Amyloid beta A4 precursor protein-binding family B member 1 | protein | 120 | 29% helix, 42% strand | O00213 |
| C | Amyloid beta A4 precursor protein-binding family B member 1 | protein | 122 | 26% helix, 40% strand | O00213 |
| D | Amyloid beta A4 precursor protein-binding family B member 1 | protein | 122 | 29% helix, 40% strand | O00213 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 565 | 0.69 | 0.78 | 67 | empty |
| 2 | 391 | 0.66 | 0.79 | 34 | empty |
| 3 | 68 | 0.31 | 0.74 | 18 | empty |
| 4 | 60 | 0.29 | 0.74 | 14 | empty |
| 5 | 56 | 0.29 | 0.75 | 13 | empty |
Interfaces
4 interfaces between chains.
- A–B · 702 Ų buried · 9 hydrogen bonds · protein-protein
- C–D · 690 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 95 Ų buried · 0 hydrogen bonds · protein-protein
- B–C · 56 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3D8E · Crystal structure of the human Fe65-PTB1 domain (trigonal crystal form) · 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 B against A, TM-score 0.98
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
- Elsewhere: RCSB PDB 3D8E · PDBe 3D8E · UniProt O00213
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