Research workbench
Structure of P.FURIOSUS argonaute with bound MN2+
Analyse Structure of P.FURIOSUS argonaute with bound MN2+ in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1Z25
- Type
- protein
- Length
- 713 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Argonaute
- UniProt
- Q8U3D2
- Ligands
- MN
- Pockets
- 8 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 32% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Argonaute | protein | 713 | 32% helix, 28% strand | Q8U3D2 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 510 | 0.75 | 0.83 | 70 | empty |
| 2 | 393 | 0.63 | 0.78 | 37 | empty |
| 3 | 357 | 0.61 | 0.78 | 43 | empty |
| 4 | 296 | 0.52 | 0.74 | 30 | empty |
| 5 | 193 | 0.47 | 0.75 | 25 | empty |
Compared structures
- 1Z25 · Structure of P.furiosus Argonaute with bound Mn2+ · 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 Q8U3D2
- Elsewhere: RCSB PDB 1Z25 · PDBe 1Z25 · UniProt Q8U3D2
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