Research workbench
Crystal structure of sugar-binding transcriptional regulator (laci family) from escherichia COLI complexed with phosphate
Analyse Crystal structure of sugar-binding transcriptional regulator (laci family) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3DBI
- Type
- protein
- Length
- 833 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sugar-binding transcriptional regulator, laci family
- UniProt
- P24242
- Ligands
- PO4
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 3 distinct chains · 43% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sugar-binding transcriptional regulator, laci family | protein | 278 | 43% helix, 17% strand | P24242 |
| B | Sugar-binding transcriptional regulator, laci family | protein | 278 | 43% helix, 16% strand | P24242 |
| C | Sugar-binding transcriptional regulator, laci family | protein | 277 | 43% helix, 17% strand | P24242 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 757 | 0.73 | 0.79 | 81 | empty |
| 2 | 694 | 0.66 | 0.75 | 70 | empty |
| 3 | 72 | 0.35 | 0.76 | 15 | empty |
| 4 | 88 | 0.35 | 0.75 | 19 | empty |
| 5 | 68 | 0.30 | 0.74 | 18 | empty |
Interfaces
2 interfaces between chains.
- A–C · 1797 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 157 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 27 modified (engineered).
Compared structures
- 3DBI · Crystal structure of sugar-binding transcriptional regulator (laci family) from… · the same entry in another collection · chain A against A, TM-score 1.00
- P24242 · AlphaFold monomer V2.0 prediction for hth-type transcriptional regulator ascg (P24242) · a predicted model of the same protein · chain B against A, TM-score 0.92
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 P24242
- Elsewhere: RCSB PDB 3DBI · PDBe 3DBI · UniProt P24242
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