MolNFT v1 · #28700 · protein

G protein-coupled receptor kinase 2 (GRK2)

1YM7 · Beta-adrenergic receptor kinase 1: “G protein-coupled receptor kinase 2 (GRK2)”. X-ray diffraction, 20 pockets (best druggability 0.62). MolNFT v1 #28700 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1YM7
Type: protein
Length: 2,422 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Beta-adrenergic receptor kinase 1
EC: 2.7.1.126
UniProt: P21146
Pockets: 20 · best druggability 0.62

Structure

x-ray diffraction · 3 distinct chains · 44% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Beta-adrenergic receptor kinase 1 (EC 2.7.1.126)	protein	608	44% helix, 14% strand	P21146
C	Beta-adrenergic receptor kinase 1 (EC 2.7.1.126)	protein	607	44% helix, 16% strand	P21146
D	Beta-adrenergic receptor kinase 1 (EC 2.7.1.126)	protein	599	44% helix, 16% strand	P21146

Pockets

20 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	397	0.62	0.77	46	empty
2	173	0.58	0.82	33	empty
3	181	0.58	0.81	31	empty
4	408	0.58	0.75	41	empty
5	195	0.57	0.80	31	empty

Interfaces

3 interfaces between chains.

B–D · 915 Å² buried · 8 hydrogen bonds · protein-protein
A–C · 898 Å² buried · 7 hydrogen bonds · protein-protein
A–B · 817 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

1YM7 · G Protein-Coupled Receptor Kinase 2 (GRK2) · the same entry in another collection · chain D against D, TM-score 1.00
P21146 · AlphaFold monomer V2.0 prediction for beta-adrenergic receptor kinase 1 (P21146) · 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 P21146
Elsewhere: RCSB PDB 1YM7 · PDBe 1YM7 · UniProt P21146

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