Research workbench
Cryo-EM structure of arabidopsis DCL1 in complex with pri-miRNA 166F
Analyse Cryo-EM structure of arabidopsis DCL1 in complex with pri-miRNA 166F in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7ELD
- Type
- protein + RNA
- Length
- 1,246 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Endoribonuclease dicer homolog 1; Pri-miRNA 166F
- EC
- 3.1.26.-
- UniProt
- Q9SP32
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 2 distinct chains · 50% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Endoribonuclease dicer homolog 1 (EC 3.1.26.-) | protein | 1137 | 50% helix, 8% strand | Q9SP32 |
| B | Pri-miRNA 166F | rna | 109 | — | — |
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 846 | 0.82 | 0.84 | 87 | empty |
| 2 | 616 | 0.80 | 0.86 | 69 | empty |
| 3 | 895 | 0.80 | 0.82 | 81 | empty |
| 4 | 820 | 0.73 | 0.79 | 46 | empty |
| 5 | 558 | 0.71 | 0.81 | 37 | empty |
Interfaces
1 interface between chains.
- A–B · 3388 Ų buried · 82 hydrogen bonds · protein-nucleic
Compared structures
- 7ELD · Cryo-EM structure of Arabidopsis DCL1 in complex with pri-miRNA 166f · the same entry in another collection · chain A against A, TM-score 1.00
- Q9SP32 · AlphaFold monomer V2.0 prediction for endoribonuclease dicer homolog 1 (Q9SP32) · a predicted model of the same protein · chain A against A, TM-score 0.50
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 Q9SP32
- Elsewhere: RCSB PDB 7ELD · PDBe 7ELD · UniProt Q9SP32
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