MolNFT v1 · #125658 · protein
Mama rs-1 arstm double mutant
5LFM · Magnetosome protein mama: “Mama rs-1 arstm double mutant”. X-ray diffraction, 1 ligand (CL), 5 pockets (best druggability 0.66). MolNFT v1 #125658 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5LFM
- Type
- protein
- Length
- 1,060 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Magnetosome protein mama
- UniProt
- C4XPQ7
- Ligands
- CL
- Pockets
- 5 · best druggability 0.66
Structure
x-ray diffraction · 3 distinct chains · 80% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E | Magnetosome protein mama | protein | 177 | 80% helix, 0% strand | C4XPQ7 |
| B, C, D | Magnetosome protein mama | protein | 176 | 80% helix, 0% strand | C4XPQ7 |
| F | Magnetosome protein mama | protein | 178 | 79% helix, 0% strand | C4XPQ7 |
Ligands and binding sites
- CL · Chloride ion · ion · 6 copies · chains A, E, B, F, C, D
- ACT · Acetate ion · additive · 6 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 582 | 0.66 | 0.76 | 49 | empty |
| 2 | 70 | 0.31 | 0.74 | 17 | ACT |
| 3 | 74 | 0.30 | 0.73 | 17 | ACT |
| 4 | 59 | 0.28 | 0.73 | 13 | ACT |
| 5 | 57 | 0.28 | 0.73 | 17 | ACT |
Interfaces
7 interfaces between chains.
- A–D · 661 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 655 Ų buried · 2 hydrogen bonds · protein-protein
- B–F · 642 Ų buried · 4 hydrogen bonds · protein-protein
- D–E · 635 Ų buried · 6 hydrogen bonds · protein-protein
- A–E · 634 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 5LFM · MamA RS-1 ArsTM double mutant · 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 C4XPQ7
- Elsewhere: RCSB PDB 5LFM · PDBe 5LFM · UniProt C4XPQ7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.