Research workbench
MLOK1 model from single particle analysis of 2D crystals, class 4 (COMPACT/OPEN conformation)
Analyse MLOK1 model from single particle analysis of 2D crystals, class 4 (COMPACT/OPEN… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6QD0
- Type
- protein
- Length
- 1,420 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cyclic nucleotide-gated potassium channel MLL3241
- UniProt
- Q98GN8
- Ligands
- K
- Pockets
- 20 · best druggability 0.87
Structure
electron microscopy · 1 distinct chain · 57% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Cyclic nucleotide-gated potassium channel MLL3241 | protein | 355 | 57% helix, 9% strand | Q98GN8 |
Ligands and binding sites
- K · Potassium ion · metal · 2 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1094 | 0.87 | 0.88 | 127 | empty |
| 2 | 923 | 0.74 | 0.78 | 97 | empty |
| 3 | 211 | 0.71 | 0.87 | 37 | empty |
| 4 | 82 | 0.70 | 0.94 | 23 | empty |
| 5 | 523 | 0.67 | 0.77 | 60 | empty |
Interfaces
6 interfaces between chains.
- A–D · 2255 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 2249 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 2243 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 2212 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 62 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6QD0 · MloK1 model from single particle analysis of 2D crystals, class 4 (compact/open… · the same entry in another collection · chain D against D, TM-score 1.00
- Q98GN8 · AlphaFold monomer V2.0 prediction for cyclic nucleotide-gated potassium channel MLL3241… · a predicted model of the same protein · chain C against A, TM-score 0.73
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 Q98GN8
- Elsewhere: RCSB PDB 6QD0 · PDBe 6QD0 · UniProt Q98GN8
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