Research workbench
MamM CTD E289D - Manganese form
Analyse MamM CTD E289D - Manganese form in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6H9P
- Type
- protein
- Length
- 252 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.1
- Source
- Magnetospirillum gryphiswaldense MSR-1
- Molecule
- Magnetosome protein MamM, Cation efflux protein family
- UniProt
- Q6NE57
- Ligands
- MN, SO4
- Pockets
- 2 · best druggability 0.59
Structure
x-ray diffraction · resolution 2.1 · 3 distinct chains · 38% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Magnetosome protein MamM, Cation efflux protein family | protein | 92 | 35% helix, 34% strand | Q6NE57 |
| B | Magnetosome protein MamM, Cation efflux protein family | protein | 79 | 39% helix, 39% strand | Q6NE57 |
| C | Magnetosome protein MamM, Cation efflux protein family | protein | 81 | 40% helix, 37% strand | Q6NE57 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · chains A
- SO4 · Sulfate ion · ion · 3 copies · chains A, B, C
- BME · Beta-mercaptoethanol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 102 | 0.59 | 0.87 | 16 | empty |
| 2 | 72 | 0.34 | 0.76 | 14 | SO4 |
Interfaces
2 interfaces between chains.
- B–C · 906 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 383 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 covalent (additive adduct).
Compared structures
- 6H9P · Mamm ctd E289D - manganese form · 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 Q6NE57
- Elsewhere: RCSB PDB 6H9P · PDBe 6H9P · UniProt Q6NE57
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