MolNFT v1 · #126818 · protein
Crystal structure of yeast CDT1 C-terminal domain
5MEB · Cell division cycle protein CDT1: “Crystal structure of yeast CDT1 C-terminal domain”. X-ray diffraction, 1 ligand (SO4), 2 pockets (best druggability 0.40). MolNFT v1 #126818 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5MEB
- Type
- protein
- Length
- 221 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cell division cycle protein CDT1
- UniProt
- P47112
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.40
Structure
x-ray diffraction · 2 distinct chains · 62% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cell division cycle protein CDT1 | protein | 112 | 63% helix, 9% strand | P47112 |
| B | Cell division cycle protein CDT1 | protein | 109 | 61% helix, 13% strand | P47112 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 75 | 0.40 | 0.79 | 15 | empty |
| 2 | 61 | 0.31 | 0.75 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 324 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 modified (engineered).
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 P47112
- Elsewhere: RCSB PDB 5MEB · PDBe 5MEB · UniProt P47112
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