Research workbench
Crystal structure of cytidine deaminase from streptomyces noursei
Analyse Crystal structure of cytidine deaminase from streptomyces noursei in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6KW6
- Type
- protein
- Length
- 238 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytidine deaminase
- Ligands
- ZN
- Pockets
- 3 · best druggability 0.37
Structure
x-ray diffraction · 1 distinct chain · 34% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Cytidine deaminase | protein | 119 | 34% helix, 27% strand | — |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 96 | 0.37 | 0.75 | 21 | empty |
| 2 | 83 | 0.35 | 0.75 | 22 | ZN |
| 3 | 94 | 0.33 | 0.73 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 1058 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 6KW6 · Crystal Structure of cytidine deaminase from Streptomyces noursei · 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
- Elsewhere: RCSB PDB 6KW6 · PDBe 6KW6
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