MolNFT v1 · #141115 · protein

Crystal structure of CK2A2 form-1

5YWM · Casein kinase II subunit alpha': “Crystal structure of CK2A2 form-1”. X-ray diffraction, 2 ligands (NIO, SO4), 3 pockets (best druggability 0.64). MolNFT v1 #141115 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5YWM
Type: protein
Length: 313 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: P19784
Ligands: NIO, SO4
Pockets: 3 · best druggability 0.64

Structure

x-ray diffraction · 1 distinct chain · 38% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
X	Casein kinase II subunit alpha' (EC 2.7.11.1)	protein	313	38% helix, 15% strand	P19784

Ligands and binding sites

NIO · Nicotinic acid · ligand · chains X
SO4 · Sulfate ion · ion · 2 copies · chains X

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	220	0.64	0.82	30	NIO
2	106	0.39	0.75	16	empty
3	56	0.30	0.75	15	empty

Compared structures

5YWM · Crystal structure of CK2a2 form-1 · the same entry in another collection · chain X against X, TM-score 1.00
P19784 · AlphaFold monomer V2.0 prediction for casein kinase II subunit alpha' (P19784) · a predicted model of the same protein · chain X 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 P19784
Elsewhere: RCSB PDB 5YWM · PDBe 5YWM · UniProt P19784

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