Research workbench
Crystal structure of a putative transcriptional repressor of ribose operon from staphylococcus saprophyticus subsp. saprophyticus
Analyse Crystal structure of a putative transcriptional repressor of ribose operon from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3E61
- Type
- protein
- Length
- 480 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative transcriptional repressor of ribose operon
- UniProt
- Q49XF6
- Pockets
- 4 · best druggability 0.66
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative transcriptional repressor of ribose operon | protein | 239 | 50% helix, 18% strand | Q49XF6 |
| B | Putative transcriptional repressor of ribose operon | protein | 241 | 48% helix, 19% strand | Q49XF6 |
Ligands and binding sites
- GOL · Glycerol · additive · 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, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 443 | 0.66 | 0.78 | 57 | GOL |
| 2 | 209 | 0.60 | 0.81 | 37 | GOL |
| 3 | 224 | 0.52 | 0.76 | 28 | empty |
| 4 | 115 | 0.38 | 0.74 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 1643 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
- 3E61 · Crystal structure of a putative transcriptional repressor of ribose operon from… · 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 Q49XF6
- Elsewhere: RCSB PDB 3E61 · PDBe 3E61 · UniProt Q49XF6
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