Research workbench
Per-2 class a extended-spectrum beta-lactamase crystal structure at 2.69 ångström resolution
Analyse Per-2 class a extended-spectrum beta-lactamase crystal structure at 2.69… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6DGU
- Type
- protein
- Length
- 1,098 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-lactamase
- EC
- 3.5.2.6
- UniProt
- A2RP81
- Pockets
- 12 · best druggability 0.67
Structure
x-ray diffraction · 4 distinct chains · 42% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Beta-lactamase (EC 3.5.2.6) | protein | 277 | 42% helix, 21% strand | A2RP81 |
| A | Beta-lactamase (EC 3.5.2.6) | protein | 274 | 43% helix, 21% strand | A2RP81 |
| C | Beta-lactamase (EC 3.5.2.6) | protein | 275 | 43% helix, 21% strand | A2RP81 |
| D | Beta-lactamase (EC 3.5.2.6) | protein | 272 | 43% helix, 21% strand | A2RP81 |
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 616 | 0.67 | 0.76 | 66 | empty |
| 2 | 259 | 0.62 | 0.81 | 36 | empty |
| 3 | 331 | 0.61 | 0.78 | 34 | empty |
| 4 | 86 | 0.58 | 0.87 | 17 | empty |
| 5 | 200 | 0.51 | 0.77 | 24 | empty |
Interfaces
4 interfaces between chains.
- A–D · 861 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 496 Ų buried · 3 hydrogen bonds · protein-protein
- B–A · 478 Ų buried · 1 hydrogen bond · protein-protein
- C–D · 199 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 6DGU · PER-2 class A extended-spectrum beta-lactamase crystal structure at 2.69 Angstrom… · the same entry in another collection · chain B against B, 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 A2RP81
- Elsewhere: RCSB PDB 6DGU · PDBe 6DGU · UniProt A2RP81
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