Research workbench
Cryo-electron microscopy structure of a bovine clc-K chloride channel, alternate (class 2) conformation
Analyse Cryo-electron microscopy structure of a bovine clc-K chloride channel… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5TR1
- Type
- protein
- Length
- 1,648 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chloride channel protein; Monoclonal antibody, Fab fragment, heavy chain; Monoclonal…
- UniProt
- E1B792
- Ligands
- Y01
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 3 distinct chains · 51% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Chloride channel protein | protein | 606 | 68% helix, 6% strand | E1B792 |
| H, I | Monoclonal antibody, Fab fragment, heavy chain | protein | 111 | 5% helix, 45% strand | — |
| L, M | Monoclonal antibody, Fab fragment, light chain | protein | 107 | 3% helix, 50% strand | — |
Ligands and binding sites
- Y01 · Cholesterol hemisuccinate · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1017 | 0.80 | 0.82 | 92 | empty |
| 2 | 789 | 0.75 | 0.79 | 89 | empty |
| 3 | 677 | 0.74 | 0.80 | 67 | empty |
| 4 | 244 | 0.71 | 0.86 | 37 | empty |
| 5 | 238 | 0.70 | 0.86 | 38 | empty |
Interfaces
7 interfaces between chains.
- A–B · 2460 Ų buried · 21 hydrogen bonds · protein-protein
- I–M · 837 Ų buried · 7 hydrogen bonds · protein-protein
- H–L · 832 Ų buried · 7 hydrogen bonds · protein-protein
- A–L · 672 Ų buried · 4 hydrogen bonds · protein-protein
- B–M · 672 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5TR1 · Cryo-electron microscopy structure of a bovine CLC-K chloride channel, alternate (class… · the same entry in another collection · chain A 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 E1B792
- Elsewhere: RCSB PDB 5TR1 · PDBe 5TR1 · UniProt E1B792
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