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Structures of human pancreatic alpha-amylase in complex with acarviostatin III03
Analyse Structures of human pancreatic alpha-amylase in complex with acarviostatin III03 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3OLG
- Type
- protein
- Length
- 495 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pancreatic alpha-amylase
- EC
- 3.2.1.1
- UniProt
- P04746
- Ligands
- G6D, HSD, PCA, GLC, BGC, CA, CL, SO4
- Pockets
- 5 · best druggability 0.61
Structure
x-ray diffraction · 1 distinct chain · 27% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pancreatic alpha-amylase (EC 3.2.1.1) | protein | 495 | 27% helix, 24% strand | P04746 |
Ligands and binding sites
- G6D · alpha-D-quinovopyranose · ligand · 2 copies · chains A
- HSD · (1S,2S,3R,6R)-6-amino-4-(hydroxymethyl)cyclohex-4-ene-1,2,3-triol · ligand · 2 copies · chains A
- PCA · Pyroglutamic acid · ligand · chains A
- GLC · alpha-D-glucopyranose · sugar · 8 copies · chains A
- BGC · beta-D-glucopyranose · sugar · 3 copies · chains A
- CA · Calcium ion · metal · chains A
- CL · Chloride ion · ion · chains A
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 238 | 0.61 | 0.80 | 24 | GLC, G6D, HSD |
| 2 | 77 | 0.38 | 0.78 | 20 | empty |
| 3 | 98 | 0.36 | 0.75 | 20 | empty |
| 4 | 51 | 0.35 | 0.79 | 14 | PCA |
| 5 | 64 | 0.32 | 0.76 | 13 | empty |
Modifications
Observed in the structure: 5 disulfide, 1 covalent (disulfide, covalent ligand).
Compared structures
- 3OLG · Structures of human pancreatic alpha-amylase in complex with acarviostatin III03 · the same entry in another collection · chain A against A, TM-score 1.00
- P04746 · AlphaFold monomer V2.0 prediction for pancreatic alpha-amylase (P04746) · a predicted model of the same protein · 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 P04746
- Elsewhere: RCSB PDB 3OLG · PDBe 3OLG · UniProt P04746
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