MolNFT v1 · #16639 · protein
The three-dimensional structure of beta-agarase a from zobellia galactanivorans
1O4Y: “The three-dimensional structure of beta-agarase a from zobellia galactanivorans”. X-ray diffraction, 3 ligands (NA, CA, SO4), 1 pocket (best druggability 0.54). MolNFT v1 #16639 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 1O4Y
- Type
- protein
- Length
- 270 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-agarase a
- EC
- 3.2.1.81
- UniProt
- Q9RGX9
- Ligands
- NA, CA, SO4
- Pockets
- 1 · best druggability 0.54
Structure
x-ray diffraction · 1 distinct chain · 12% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-agarase a (EC 3.2.1.81) | protein | 270 | 12% helix, 44% strand | Q9RGX9 |
Ligands and binding sites
- NA · Sodium ion · metal · chains A
- CA · Calcium ion · metal · chains A
- SO4 · Sulfate ion · ion · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 214 | 0.54 | 0.78 | 29 | empty |
Compared structures
- 1O4Y · The three-dimensional structure of beta-agarase a from zobellia galactanivorans · 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 Q9RGX9
- Elsewhere: RCSB PDB 1O4Y · PDBe 1O4Y · UniProt Q9RGX9
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