Research workbench
Structure of the RNA pyrophosphohydrolase bdrpph
Analyse Structure of the RNA pyrophosphohydrolase bdrpph in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3EES
- Type
- protein
- Length
- 259 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable pyrophosphohydrolase
- EC
- 3.6.1.-
- UniProt
- Q6MPX4
- Pockets
- 4 · best druggability 0.58
Structure
x-ray diffraction · 2 distinct chains · 23% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Probable pyrophosphohydrolase (EC 3.6.1.-) | protein | 131 | 23% helix, 40% strand | Q6MPX4 |
| B | Probable pyrophosphohydrolase (EC 3.6.1.-) | protein | 128 | 23% helix, 39% strand | Q6MPX4 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 201 | 0.58 | 0.80 | 25 | empty |
| 2 | 138 | 0.52 | 0.80 | 21 | empty |
| 3 | 88 | 0.36 | 0.75 | 15 | empty |
| 4 | 77 | 0.33 | 0.74 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 924 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 3EES · Structure of the RNA pyrophosphohydrolase BdRppH · 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 Q6MPX4
- Elsewhere: RCSB PDB 3EES · PDBe 3EES · UniProt Q6MPX4
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