MolNFT v1 · #25195 · protein
Crystal structure of cmp-kdo synthetase
1VIC · 3-deoxy-manno-octulosonate cytidylyltransferase: “Crystal structure of cmp-kdo synthetase”. X-ray diffraction, 6 pockets (best druggability 0.63). MolNFT v1 #25195 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1VIC
- Type
- protein
- Length
- 503 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 3-deoxy-manno-octulosonate cytidylyltransferase
- EC
- 2.7.7.38
- UniProt
- P44490
- Pockets
- 6 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 35% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 3-deoxy-manno-octulosonate cytidylyltransferase (EC 2.7.7.38) | protein | 255 | 36% helix, 22% strand | P44490 |
| B | 3-deoxy-manno-octulosonate cytidylyltransferase (EC 2.7.7.38) | protein | 248 | 33% helix, 22% strand | P44490 |
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 184 | 0.63 | 0.84 | 19 | empty |
| 2 | 450 | 0.60 | 0.75 | 49 | empty |
| 3 | 476 | 0.60 | 0.75 | 43 | empty |
| 4 | 173 | 0.51 | 0.77 | 22 | empty |
| 5 | 139 | 0.46 | 0.77 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 1437 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
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 P44490
- Elsewhere: RCSB PDB 1VIC · PDBe 1VIC · UniProt P44490
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