Research workbench
Periplasmic domain of the riss sensor protein from burkholderia pseudomallei, iodide phased at neutral pH
Analyse Periplasmic domain of the riss sensor protein from burkholderia pseudomallei… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3LR5
- Type
- protein
- Length
- 242 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sensor protein
- EC
- 2.7.13.3
- UniProt
- Q63T74
- Ligands
- IOD
- Pockets
- 3 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sensor protein (EC 2.7.13.3) | protein | 119 | 40% helix, 26% strand | Q63T74 |
| B | Sensor protein (EC 2.7.13.3) | protein | 123 | 43% helix, 24% strand | Q63T74 |
Ligands and binding sites
- IOD · Iodide ion · ion · 5 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 380 | 0.70 | 0.82 | 48 | IOD |
| 2 | 70 | 0.43 | 0.80 | 12 | empty |
| 3 | 91 | 0.36 | 0.75 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1077 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 3LR5 · Periplasmic domain of the risS sensor protein from Burkholderia pseudomallei, iodide… · 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 Q63T74
- Elsewhere: RCSB PDB 3LR5 · PDBe 3LR5 · UniProt Q63T74
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