Research workbench
Structural characterization of the late competence protein comfb from bacillus subtilis.
Analyse Structural characterization of the late competence protein comfb from bacillus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4WAI
- Type
- protein
- Length
- 359 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Comf operon protein 2
- UniProt
- P39146
- Ligands
- ZN
- Pockets
- 4 · best druggability 0.48
Structure
x-ray diffraction · 3 distinct chains · 60% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Comf operon protein 2 | protein | 91 | 60% helix, 4% strand | P39146 |
| B | Comf operon protein 2 | protein | 89 | 56% helix, 4% strand | P39146 |
| D | Comf operon protein 2 | protein | 88 | 63% helix, 5% strand | P39146 |
Ligands and binding sites
- ZN · Zinc ion · metal · 4 copies · chains A, C, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 173 | 0.48 | 0.76 | 32 | empty |
| 2 | 164 | 0.48 | 0.77 | 21 | empty |
| 3 | 51 | 0.33 | 0.78 | 13 | empty |
| 4 | 55 | 0.28 | 0.74 | 16 | empty |
Interfaces
4 interfaces between chains.
- C–D · 838 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 811 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 688 Ų buried · 3 hydrogen bonds · protein-protein
- C–B · 103 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 4WAI · Structural characterization of the late competence protein ComFB from Bacillus subtilis. · the same entry in another collection · chain C against C, TM-score 1.00
- P39146 · AlphaFold monomer V2.0 prediction for comf operon protein 2 (P39146) · a predicted model of the same protein · chain D against A, TM-score 0.95
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 P39146
- Elsewhere: RCSB PDB 4WAI · PDBe 4WAI · UniProt P39146
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.