Research workbench
Crystal structure of ARA127N-se, a GH127 beta-L-arabinofuranosidase from geobacillus stearothermophilus T6
Analyse Crystal structure of ARA127N-se, a GH127 beta-L-arabinofuranosidase from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4QK0
- Type
- protein
- Length
- 2,540 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GH127 beta-L-arabinofuranoside
- UniProt
- B3EYN9
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | GH127 beta-L-arabinofuranoside | protein | 635 | 39% helix, 20% strand | B3EYN9 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 397 | 0.84 | 0.92 | 57 | empty |
| 2 | 393 | 0.84 | 0.92 | 60 | empty |
| 3 | 1006 | 0.79 | 0.81 | 93 | empty |
| 4 | 141 | 0.72 | 0.91 | 32 | empty |
| 5 | 274 | 0.72 | 0.86 | 51 | empty |
Interfaces
4 interfaces between chains.
- C–D · 2715 Ų buried · 30 hydrogen bonds · protein-protein
- A–B · 2668 Ų buried · 29 hydrogen bonds · protein-protein
- B–C · 449 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 51 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 56 modified (engineered).
Compared structures
- 4QK0 · Crystal structure of Ara127N-Se, a GH127 beta-L-arabinofuranosidase from Geobacillus… · 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 B3EYN9
- Elsewhere: RCSB PDB 4QK0 · PDBe 4QK0 · UniProt B3EYN9
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