Research workbench
Crystal structure of SPO0M, sporulation control protein, from bacillus subtilis.
Analyse Crystal structure of SPO0M, sporulation control protein, from bacillus subtilis. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5CL2
- Type
- protein
- Length
- 491 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sporulation-control protein SPO0M
- UniProt
- P71088
- Ligands
- NA
- Pockets
- 4 · best druggability 0.84
Structure
x-ray diffraction · 2 distinct chains · 17% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sporulation-control protein SPO0M | protein | 246 | 17% helix, 49% strand | P71088 |
| B | Sporulation-control protein SPO0M | protein | 245 | 17% helix, 49% strand | P71088 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 242 | 0.84 | 0.96 | 55 | empty |
| 2 | 161 | 0.40 | 0.73 | 32 | empty |
| 3 | 105 | 0.34 | 0.73 | 23 | empty |
| 4 | 54 | 0.26 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 893 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 5CL2 · Crystal structure of Spo0M, sporulation control protein, from Bacillus subtilis. · the same entry in another collection · chain A against A, TM-score 1.00
- P71088 · AlphaFold monomer V2.0 prediction for sporulation-control protein SPO0M (P71088) · a predicted model of the same protein · chain B 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 P71088
- Elsewhere: RCSB PDB 5CL2 · PDBe 5CL2 · UniProt P71088
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