MolNFT v1 · #154931 · protein + RNA
Crystal structure of drosophila piwi
6KR6 · Protein piwi: “Crystal structure of drosophila piwi”. X-ray diffraction, 2 ligands (ZN, HG), 5 pockets (best druggability 0.58). MolNFT v1 #154931 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6KR6
- Type
- protein + RNA
- Length
- 717 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein piwi; Pirna
- EC
- 3.1.26.-
- UniProt
- Q9VKM1
- Ligands
- ZN, HG
- Pockets
- 5 · best druggability 0.58
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein piwi (EC 3.1.26.-) | protein | 713 | 33% helix, 29% strand | Q9VKM1 |
| B | Pirna | rna | 4 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 393 | 0.58 | 0.75 | 56 | HG |
| 2 | 207 | 0.54 | 0.78 | 38 | empty |
| 3 | 218 | 0.51 | 0.77 | 17 | empty |
| 4 | 100 | 0.37 | 0.74 | 23 | empty |
| 5 | 72 | 0.32 | 0.74 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 602 Ų buried · 21 hydrogen bonds · protein-nucleic
Compared structures
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 Q9VKM1
- Elsewhere: RCSB PDB 6KR6 · PDBe 6KR6 · UniProt Q9VKM1
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