Research workbench
Crystal structure of yycf receiver domain from bacillus subtilis
Analyse Crystal structure of yycf receiver domain 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
- 2ZWM
- Type
- protein
- Length
- 240 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcriptional regulatory protein yycf
- UniProt
- P37478
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.52
Structure
x-ray diffraction · 1 distinct chain · 48% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Transcriptional regulatory protein yycf | protein | 120 | 48% helix, 22% strand | P37478 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 4 copies · chains A, B
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 | 138 | 0.52 | 0.80 | 22 | SO4 |
| 2 | 152 | 0.41 | 0.74 | 23 | empty |
Interfaces
1 interface between chains.
- A–B · 1176 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 2ZWM · Crystal structure of YycF receiver domain from Bacillus subtilis · the same entry in another collection · chain A against A, TM-score 1.00
- P37478 · AlphaFold monomer V2.0 prediction for transcriptional regulatory protein walr (P37478) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P37478
- Elsewhere: RCSB PDB 2ZWM · PDBe 2ZWM · UniProt P37478
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