MolNFT v1 · #170995 · protein
Crystal structure of CK2ALPHA with compound 2 bound to second crystal form
6YPG · Casein kinase II subunit alpha: “Crystal structure of CK2ALPHA with compound 2 bound to second crystal form”. X-ray diffraction, 1 ligand (N5Q), 5 pockets (best druggability 0.68). MolNFT v1 #170995 on GenesisL1: 3D structure…
- PDB
- 6YPG
- Type
- protein
- Length
- 327 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Casein kinase II subunit alpha
- EC
- 2.7.11.1
- UniProt
- P68400
- Ligands
- N5Q
- Pockets
- 5 · best druggability 0.68
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Casein kinase II subunit alpha (EC 2.7.11.1) | protein | 327 | 39% helix, 15% strand | P68400 |
Ligands and binding sites
- N5Q · 4-[(4-naphthalen-2-yl-1,3-thiazol-2-yl)amino]-2-oxidanyl-benzoic acid · ligand · chains A
- ACT · Acetate ion · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 415 | 0.68 | 0.80 | 48 | N5Q |
| 2 | 51 | 0.55 | 0.90 | 20 | empty |
| 3 | 54 | 0.36 | 0.78 | 14 | empty |
| 4 | 54 | 0.30 | 0.76 | 13 | empty |
| 5 | 58 | 0.29 | 0.74 | 12 | empty |
Compared structures
- 6YPG · Crystal Structure of CK2alpha with Compound 2 bound to second crystal form · the same entry in another collection · chain A against A, TM-score 1.00
- P68400 · AlphaFold monomer V2.0 prediction for casein kinase II subunit alpha (P68400) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P68400
- Elsewhere: RCSB PDB 6YPG · PDBe 6YPG · UniProt P68400
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