MolNFT v1 · #189387 · protein
The structure of cyclin-dependent kinase 5 (CDK5) in complex with P25 and compound 13
7VDR: “The structure of cyclin-dependent kinase 5 (CDK5) in complex with P25 and compound 13”. X-ray diffraction, 1 ligand (63I). MolNFT v1 #189387 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7VDR
- Type
- protein
- Length
- 849 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q00535, Q15078
- Ligands
- 63I
Structure
x-ray diffraction · 4 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 290 | — | Q00535 |
| B | — | protein | 275 | — | Q00535 |
| C | — | protein | 148 | — | Q15078 |
| D | — | protein | 136 | — | Q15078 |
Ligands and binding sites
- 63I · (1R)-1-[7-[(2-fluoranyl-4-pyrazol-1-yl-phenyl)amino]-1, 6-naphthyridin-2-yl]-1-(1-methylpiperidin-4-yl)ethanol · ligand · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 9 copies · chains A, C
- PGE · Triethylene glycol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7VDR · The structure of cyclin-dependent kinase 5 (CDK5) in complex with p25 and Compound 13 · the same entry in another collection · chain D against D, TM-score 1.00
- Q15078 · AlphaFold monomer V2.0 prediction for cyclin-dependent kinase 5 activator 1 (Q15078) · a predicted model of the same protein · chain C against A, TM-score 1.00
- Q00535 · AlphaFold monomer V2.0 prediction for cyclin-dependent-like kinase 5 (Q00535) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 Q00535
- Every structure of UniProt Q15078
- Elsewhere: RCSB PDB 7VDR · PDBe 7VDR · UniProt Q00535 · UniProt Q15078
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