Research workbench
Three-dimensional structure of a variant `termamyl-like' geobacillus stearothermophilus alpha-amylase at 1.9 a resolution
Analyse Three-dimensional structure of a variant `termamyl-like' geobacillus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4UZU
- Type
- protein
- Length
- 479 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Alpha-amylase
- EC
- 3.2.1.1
- UniProt
- P06279
- Ligands
- GLY, CA, NA, CL
- Pockets
- 2 · best druggability 0.50
Structure
x-ray diffraction · 1 distinct chain · 27% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Alpha-amylase (EC 3.2.1.1) | protein | 479 | 27% helix, 27% strand | P06279 |
Ligands and binding sites
- GLY · Glycine · ligand · 2 copies · chains A
- CA · Calcium ion · metal · 3 copies · chains A
- NA · Sodium ion · metal · 3 copies · chains A
- CL · Chloride ion · ion · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 161 | 0.50 | 0.78 | 25 | NA |
| 2 | 55 | 0.40 | 0.81 | 18 | empty |
Compared structures
- 4UZU · Three-dimensional structure of a variant `Termamyl-like' Geobacillus stearothermophilus… · the same entry in another collection · chain A against A, TM-score 1.00
- P06279 · AlphaFold monomer V2.0 prediction for alpha-amylase (P06279) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P06279
- Elsewhere: RCSB PDB 4UZU · PDBe 4UZU · UniProt P06279
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