Research workbench
Crystal structure of a. aeolicus argonaute
Analyse Crystal structure of a. aeolicus argonaute in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1YVU
- Type
- protein
- Length
- 682 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein AQ_1447
- UniProt
- O67434
- Ligands
- CA
- Pockets
- 11 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical protein AQ_1447 | protein | 682 | 33% helix, 28% strand | O67434 |
Ligands and binding sites
- CA · Calcium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 536 | 0.69 | 0.78 | 44 | empty |
| 2 | 511 | 0.68 | 0.78 | 48 | empty |
| 3 | 467 | 0.66 | 0.78 | 48 | CA |
| 4 | 385 | 0.64 | 0.78 | 38 | empty |
| 5 | 164 | 0.63 | 0.85 | 25 | empty |
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 1YVU · Crystal structure of A. aeolicus Argonaute · 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 O67434
- Elsewhere: RCSB PDB 1YVU · PDBe 1YVU · UniProt O67434
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