MolNFT v1 · #136347 · protein
Crystal structure of human CDK2-SPY1 complex
5UQ2 · Cyclin-dependent kinase 2: “Crystal structure of human CDK2-SPY1 complex”. X-ray diffraction, 5 pockets (best druggability 0.71). MolNFT v1 #136347 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5UQ2
- Type
- protein
- Length
- 429 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cyclin-dependent kinase 2; Speedy protein a
- EC
- 2.7.11.22
- UniProt
- P24941, Q5MJ70
- Pockets
- 5 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cyclin-dependent kinase 2 (EC 2.7.11.22) | protein | 296 | 31% helix, 17% strand | P24941 |
| B | Speedy protein a | protein | 133 | 65% helix, 0% strand | Q5MJ70 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 227 | 0.71 | 0.86 | 22 | empty |
| 2 | 257 | 0.54 | 0.77 | 41 | empty |
| 3 | 84 | 0.39 | 0.77 | 13 | empty |
| 4 | 51 | 0.39 | 0.81 | 16 | empty |
| 5 | 68 | 0.37 | 0.78 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1325 Ų buried · 27 hydrogen bonds · protein-protein
Compared structures
- 5UQ2 · Crystal structure of human Cdk2-Spy1 complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q5MJ70 · AlphaFold monomer V2.0 prediction for speedy protein a (Q5MJ70) · a predicted model of the same protein · chain B against A, TM-score 0.99
- P24941 · AlphaFold monomer V2.0 prediction for cyclin-dependent kinase 2 (P24941) · a predicted model of the same protein · chain A against A, TM-score 0.91
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 P24941
- Every structure of UniProt Q5MJ70
- Elsewhere: RCSB PDB 5UQ2 · PDBe 5UQ2 · UniProt P24941 · UniProt Q5MJ70
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