Research workbench
Crystal structure of 4-diphosphocytidyl-2C-methyl-D-erythritol synthase
Analyse Crystal structure of 4-diphosphocytidyl-2C-methyl-D-erythritol synthase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1VGU
- Type
- protein
- Length
- 410 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
- EC
- 2.7.7.60
- UniProt
- Q46893
- Pockets
- 2 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 32% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (EC 2.7.7.60) | protein | 214 | 32% helix, 27% strand | Q46893 |
| B | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (EC 2.7.7.60) | protein | 196 | 33% helix, 24% strand | Q46893 |
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 | 909 | 0.81 | 0.83 | 88 | empty |
| 2 | 68 | 0.36 | 0.77 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1869 Ų buried · 40 hydrogen bonds · protein-protein
Compared structures
- 1VGU · Crystal structure of 4-diphosphocytidyl-2C-methyl-D-erythritol synthase · the same entry in another collection · chain A against A, TM-score 1.00
- Q46893 · AlphaFold monomer V2.0 prediction for 2-C-methyl-D-erythritol 4-phosphate… · a predicted model of the same protein · chain B against A, TM-score 0.97
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 Q46893
- Elsewhere: RCSB PDB 1VGU · PDBe 1VGU · UniProt Q46893
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