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Crystal structure of ABC-type sugar transport system, periplasmic component from exiguobacterium sibiricum
Analyse Crystal structure of ABC-type sugar transport system, periplasmic component… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3L6U
- Type
- protein
- Length
- 548 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ABC-type sugar transport system periplasmic component
- UniProt
- B1YL86
- Ligands
- SO4
- Pockets
- 4 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 45% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | ABC-type sugar transport system periplasmic component | protein | 274 | 45% helix, 23% strand | B1YL86 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 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, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 52 | 0.70 | 0.98 | 16 | empty |
| 2 | 54 | 0.70 | 0.98 | 16 | empty |
| 3 | 429 | 0.69 | 0.81 | 57 | empty |
| 4 | 56 | 0.67 | 0.96 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1418 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 modified (engineered).
Compared structures
- 3L6U · Crystal structure of abc-type sugar transport system, Periplasmic component 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 B1YL86
- Elsewhere: RCSB PDB 3L6U · PDBe 3L6U · UniProt B1YL86
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