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Structure of a cytidylyltransferase from leptospira borgpetersenii serovar hardjo-bovis (strain JB197)
Analyse Structure of a cytidylyltransferase from leptospira borgpetersenii serovar… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6OEW
- Type
- protein
- Length
- 477 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytidylyltransferase
- UniProt
- Q04TM9
- Ligands
- MG, CL
- Pockets
- 3 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cytidylyltransferase | protein | 238 | 42% helix, 18% strand | Q04TM9 |
| B | Cytidylyltransferase | protein | 239 | 42% helix, 19% strand | Q04TM9 |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains A, B
- CL · Chloride ion · ion · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 6 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, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 554 | 0.68 | 0.79 | 50 | MG, EDO, CL |
| 2 | 389 | 0.66 | 0.80 | 35 | MG, CL |
| 3 | 225 | 0.59 | 0.80 | 37 | empty |
Interfaces
1 interface between chains.
- A–B · 739 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 6OEW · Structure of a Cytidylyltransferase from Leptospira borgpetersenii serovar Hardjo-bovis… · 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 Q04TM9
- Elsewhere: RCSB PDB 6OEW · PDBe 6OEW · UniProt Q04TM9
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