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The crystal structure of trypanosoma brucei RNase D
Analyse The crystal structure of trypanosoma brucei RNase D in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7C42
- Type
- protein
- Length
- 293 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cchc-type domain-containing protein
- UniProt
- Q38DE2
- Ligands
- ZN
- Pockets
- 2 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 45% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cchc-type domain-containing protein | protein | 293 | 45% helix, 12% strand | Q38DE2 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 555 | 0.65 | 0.76 | 48 | empty |
| 2 | 57 | 0.31 | 0.76 | 16 | empty |
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 7C42 · The crystal structure of Trypanosoma brucei RNase D · 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 Q38DE2
- Elsewhere: RCSB PDB 7C42 · PDBe 7C42 · UniProt Q38DE2
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