Research workbench
Two different open conformations of the helicase core of the RNA helicase hera
Analyse Two different open conformations of the helicase core of the RNA helicase hera in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4KBF
- Type
- protein
- Length
- 730 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heat resistant RNA dependent ATPase
- UniProt
- Q72GF3
- Ligands
- AMP, NA, SO4
- Pockets
- 4 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Heat resistant RNA dependent ATPase | protein | 365 | 41% helix, 18% strand | Q72GF3 |
Ligands and binding sites
- AMP · Adenosine monophosphate · ligand · chains A
- NA · Sodium ion · metal · 2 copies · chains A
- SO4 · Sulfate ion · ion · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 549 | 0.69 | 0.79 | 58 | empty |
| 2 | 179 | 0.49 | 0.77 | 28 | empty |
| 3 | 74 | 0.37 | 0.78 | 20 | empty |
| 4 | 105 | 0.33 | 0.72 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 993 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 4KBF · two different open conformations of the helicase core of the RNA helicase Hera · 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 Q72GF3
- Elsewhere: RCSB PDB 4KBF · PDBe 4KBF · UniProt Q72GF3
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