MolNFT v1 · #129615 · protein
Beta-L-arabinofuranosidase
5OPJ · Rhamnogalacturonan lyase: “Beta-L-arabinofuranosidase”. X-ray diffraction, 2 ligands (AHR, ZN), 9 pockets (best druggability 0.76). MolNFT v1 #129615 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5OPJ
- Type
- protein
- Length
- 772 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Rhamnogalacturonan lyase
- UniProt
- A0A1H7THV3
- Ligands
- AHR, ZN
- Pockets
- 9 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Rhamnogalacturonan lyase | protein | 772 | 37% helix, 26% strand | A0A1H7THV3 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 830 | 0.76 | 0.80 | 80 | empty |
| 2 | 364 | 0.66 | 0.80 | 31 | empty |
| 3 | 265 | 0.57 | 0.78 | 33 | empty |
| 4 | 192 | 0.48 | 0.76 | 29 | empty |
| 5 | 114 | 0.44 | 0.77 | 23 | empty |
Modifications
Observed in the structure: 19 modified (engineered).
Compared structures
- 5OPJ · Beta-L-arabinofuranosidase · 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 A0A1H7THV3
- Elsewhere: RCSB PDB 5OPJ · PDBe 5OPJ · UniProt A0A1H7THV3
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