Research workbench
Alzheimer's Amyloid-Beta Peptide Fragment 1-40 in Complex with Cd-substituted Thermolysin
Analyse Alzheimer's Amyloid-Beta Peptide Fragment 1-40 in Complex with Cd-substituted… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5ONP
- Type
- protein
- Length
- 321 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.34
- Source
- Geobacillus stearothermophilus; SYNTHETIC CONSTRUCT
- Molecule
- Thermolysin; Amyloid-beta A4 protein
- EC
- 3.4.24.27
- UniProt
- P43133
- Ligands
- CA, CD
Structure
x-ray diffraction · resolution 1.34 · 2 distinct chains · 41% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Thermolysin (EC 3.4.24.27) | protein | 316 | 42% helix, 18% strand | P43133 |
| B | Amyloid-beta A4 protein | protein | 5 | 0% helix, 0% strand | — |
Ligands and binding sites
- CA · Calcium ion · metal · 3 copies · chains A
- CD · Cadmium ion · metal · 2 copies · chains A, B
- DMS · Dimethyl sulfoxide · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 392 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 5ONP · ALZHEIMER'S amyloid-beta peptide fragment 1-40 in complex with CD- substituted thermolysin · the same entry in another collection · chain A against A, TM-score 1.00
- P43133 · AlphaFold monomer V2.0 prediction for thermolysin (P43133) · 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 P43133
- Elsewhere: RCSB PDB 5ONP · PDBe 5ONP · UniProt P43133
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