Research workbench
Hexameric structure of the ATPase subunit of magnesium chelatase
Analyse Hexameric structure of the ATPase subunit of magnesium chelatase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6L8D
- Type
- protein
- Length
- 1,582 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Magnesium-chelatase subunit chli
- EC
- 6.6.1.1
- UniProt
- P51634
- Pockets
- 20 · best druggability 0.73
Structure
x-ray diffraction · 6 distinct chains · 54% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Magnesium-chelatase subunit chli (EC 6.6.1.1) | protein | 267 | 54% helix, 9% strand | P51634 |
| B | Magnesium-chelatase subunit chli (EC 6.6.1.1) | protein | 273 | 52% helix, 9% strand | P51634 |
| C | Magnesium-chelatase subunit chli (EC 6.6.1.1) | protein | 256 | 55% helix, 8% strand | P51634 |
| D | Magnesium-chelatase subunit chli (EC 6.6.1.1) | protein | 253 | 57% helix, 8% strand | P51634 |
| E | Magnesium-chelatase subunit chli (EC 6.6.1.1) | protein | 266 | 54% helix, 9% strand | P51634 |
| F | Magnesium-chelatase subunit chli (EC 6.6.1.1) | protein | 267 | 52% helix, 7% strand | P51634 |
Pockets
20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 878 | 0.73 | 0.78 | 70 | empty |
| 2 | 830 | 0.72 | 0.77 | 78 | empty |
| 3 | 900 | 0.71 | 0.76 | 76 | empty |
| 4 | 641 | 0.69 | 0.77 | 73 | empty |
| 5 | 645 | 0.68 | 0.77 | 75 | empty |
Interfaces
6 interfaces between chains.
- B–C · 794 Ų buried · 12 hydrogen bonds · protein-protein
- A–F · 707 Ų buried · 11 hydrogen bonds · protein-protein
- C–D · 695 Ų buried · 11 hydrogen bonds · protein-protein
- E–F · 668 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 635 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 6L8D · Hexameric structure of the ATPase subunit of magnesium chelatase · the same entry in another collection · chain F against F, TM-score 1.00
- P51634 · AlphaFold monomer V2.0 prediction for magnesium-chelatase subunit chli (P51634) · 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 P51634
- Elsewhere: RCSB PDB 6L8D · PDBe 6L8D · UniProt P51634
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