Research workbench
Crystal structure DBF2(NTR)-MOB1 complex
Analyse Crystal structure DBF2(NTR)-MOB1 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5NCN
- Type
- protein
- Length
- 249 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DBF2 kinase activator protein MOB1; Cell cycle protein kinase DBF2
- EC
- 2.7.11.1
- UniProt
- P40484, P22204
- Ligands
- ZN, PO4, CL
- Pockets
- 1 · best druggability 0.35
Structure
x-ray diffraction · 2 distinct chains · 61% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DBF2 kinase activator protein MOB1 | protein | 173 | 55% helix, 1% strand | P40484 |
| B | Cell cycle protein kinase DBF2 (EC 2.7.11.1) | protein | 76 | 74% helix, 0% strand | P22204 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A
- PO4 · Phosphate ion · ion · 3 copies · chains A
- CL · Chloride ion · ion · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 70 | 0.35 | 0.76 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 1390 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 5NCN · Crystal structure Dbf2(NTR)-Mob1 complex · the same entry in another collection · chain A against A, TM-score 1.00
- P40484 · AlphaFold monomer V2.0 prediction for DBF2 kinase activator protein MOB1 (P40484) · a predicted model of the same protein · chain A against A, TM-score 0.97
- P22204 · AlphaFold monomer V2.0 prediction for cell cycle protein kinase DBF2 (P22204) · a predicted model of the same protein · chain B against A, TM-score 0.87
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 P40484
- Every structure of UniProt P22204
- Elsewhere: RCSB PDB 5NCN · PDBe 5NCN · UniProt P40484 · UniProt P22204
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