Research workbench
Pentameric formate channel with formate bound
Analyse Pentameric formate channel with formate bound in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3KLZ
- Type
- protein
- Length
- 1,281 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative formate transporter 1
- UniProt
- Q9KRE7
- Pockets
- 20 · best druggability 0.79
Structure
x-ray diffraction · 4 distinct chains · 79% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative formate transporter 1 | protein | 258 | 79% helix, 0% strand | Q9KRE7 |
| B | Putative formate transporter 1 | protein | 256 | 80% helix, 0% strand | Q9KRE7 |
| C, D | Putative formate transporter 1 | protein | 255 | 78% helix, 0% strand | Q9KRE7 |
| E | Putative formate transporter 1 | protein | 257 | 81% helix, 0% strand | Q9KRE7 |
Ligands and binding sites
- FMT · Formic acid · additive · 39 copies · chains A, E, B, D, C
- BOG · octyl beta-D-glucopyranoside · additive · 14 copies · chains A, B, E, 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, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1012 | 0.79 | 0.79 | 78 | BOG, FMT |
| 2 | 398 | 0.70 | 0.81 | 35 | BOG, FMT |
| 3 | 176 | 0.66 | 0.85 | 26 | FMT |
| 4 | 276 | 0.65 | 0.82 | 40 | FMT |
| 5 | 227 | 0.64 | 0.82 | 26 | FMT |
Interfaces
5 interfaces between chains.
- A–E · 1767 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 1700 Ų buried · 9 hydrogen bonds · protein-protein
- D–E · 1699 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 1653 Ų buried · 12 hydrogen bonds · protein-protein
- A–B · 1621 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 3KLZ · Pentameric formate channel with formate bound · 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 Q9KRE7
- Elsewhere: RCSB PDB 3KLZ · PDBe 3KLZ · UniProt Q9KRE7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.