MolNFT v1 · #138957 · protein

Free serine kinase in complex with AMP

5X0B: “Free serine kinase in complex with AMP”. X-ray diffraction, 1 ligand (AMP), 3 pockets (best druggability 0.66). MolNFT v1 #138957 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5X0B
Type: protein
Length: 241 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Free serine kinase
UniProt: Q5JD03
Ligands: AMP
Pockets: 3 · best druggability 0.66

Structure

x-ray diffraction · 1 distinct chain · 33% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Free serine kinase	protein	241	33% helix, 27% strand	Q5JD03

Ligands and binding sites

AMP · Adenosine monophosphate · ligand · chains A

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

Pockets

3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	436	0.66	0.78	39	AMP
2	66	0.51	0.85	23	empty
3	108	0.41	0.76	18	empty

Compared structures

5X0B · Free serine kinase in complex with AMP · the same entry in another collection · chain A against A, TM-score 1.00
Q5JD03 · AlphaFold monomer V2.0 prediction for L-serine kinase serk (Q5JD03) · 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 Q5JD03
Elsewhere: RCSB PDB 5X0B · PDBe 5X0B · UniProt Q5JD03

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