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Crystal structure of particulate methane monooxygenase from Methylomicrobium alcaliphilum 20Z
Analyse Crystal structure of particulate methane monooxygenase from Methylomicrobium… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6CXH
- Type
- protein
- Length
- 724 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.704
- Source
- Methylomicrobium alcaliphilum 20Z
- Molecule
- Particulate methane monooxygenase, B subunit; Particulate methane monooxygenase, A…
- EC
- 1.14.13.25
- UniProt
- G4SZ64, G4SZ63, G4SZ62
- Ligands
- CM5, CU
- Pockets
- 8 · best druggability 0.55
Structure
x-ray diffraction · resolution 2.704 · 3 distinct chains · 42% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Particulate methane monooxygenase, B subunit (EC 1.14.13.25) | protein | 382 | 21% helix, 39% strand | G4SZ64 |
| B | Particulate methane monooxygenase, A subunit (EC 1.14.13.25) | protein | 241 | 65% helix, 4% strand | G4SZ63 |
| C | Particulate methane monooxygenase, C subunit (EC 1.14.13.25) | protein | 101 | 66% helix, 1% strand | G4SZ62 |
Ligands and binding sites
- CM5 · 5-cyclohexyl-1-pentyl-beta-D-maltoside · ligand · 2 copies · chains A, B, C
- CU · Copper (II) ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 64 | 0.55 | 0.88 | 21 | empty |
| 2 | 97 | 0.41 | 0.77 | 18 | empty |
| 3 | 62 | 0.38 | 0.78 | 12 | empty |
| 4 | 71 | 0.34 | 0.75 | 10 | empty |
| 5 | 86 | 0.34 | 0.73 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–B · 4063 Ų buried · 50 hydrogen bonds · protein-protein
- B–C · 2236 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 336 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 6CXH · Crystal structure of particulate methane monooxygenase from methylomicrobium alcaliphilum… · 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 G4SZ64
- Every structure of UniProt G4SZ63
- Every structure of UniProt G4SZ62
- Elsewhere: RCSB PDB 6CXH · PDBe 6CXH · UniProt G4SZ64 · UniProt G4SZ63 · UniProt G4SZ62
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