Research workbench
Disproportionating enzyme 1 from arabidopsis - maltotriose soak
Analyse Disproportionating enzyme 1 from arabidopsis - maltotriose soak in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5CPS
- Type
- protein
- Length
- 1,029 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 4-alpha-glucanotransferase DPE1, CHLOROPLASTIC/AMYLOPLASTIC
- EC
- 2.4.1.25
- UniProt
- Q9LV91
- Ligands
- GLC
- Pockets
- 11 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 47% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 4-alpha-glucanotransferase DPE1, CHLOROPLASTIC/AMYLOPLASTIC (EC 2.4.1.25) | protein | 517 | 47% helix, 12% strand | Q9LV91 |
| B | 4-alpha-glucanotransferase DPE1, CHLOROPLASTIC/AMYLOPLASTIC (EC 2.4.1.25) | protein | 512 | 47% helix, 12% strand | Q9LV91 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 17 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 16 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 295 | 0.76 | 0.88 | 32 | empty |
| 2 | 628 | 0.75 | 0.81 | 71 | GLC, EDO |
| 3 | 741 | 0.72 | 0.78 | 83 | GLC, EDO |
| 4 | 337 | 0.63 | 0.79 | 31 | EDO |
| 5 | 357 | 0.60 | 0.77 | 28 | EDO |
Interfaces
1 interface between chains.
- A–B · 2044 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
- Q9LV91 · AlphaFold monomer V2.0 prediction for 4-alpha-glucanotransferase DPE1… · a predicted model of the same protein · chain B against A, TM-score 1.00
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 Q9LV91
- Elsewhere: RCSB PDB 5CPS · PDBe 5CPS · UniProt Q9LV91
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.