MolNFT v1 · #113590 · protein

Ligand complex structure of soluble epoxide hydrolase

5AK4 · Bifunctional epoxide hydrolase 2: “Ligand complex structure of soluble epoxide hydrolase”. X-ray diffraction, 1 ligand (GVG), 4 pockets (best druggability 0.78). MolNFT v1 #113590 on GenesisL1: 3D structure, binding sites and…

PDB: 5AK4
Type: protein
Length: 546 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Bifunctional epoxide hydrolase 2
EC: 3.3.2.10, 3.1.3.76
UniProt: P34913
Ligands: GVG
Pockets: 4 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 46% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Bifunctional epoxide hydrolase 2 (EC 3.3.2.10, 3.1.3.76)	protein	546	46% helix, 14% strand	P34913

Ligands and binding sites

GVG · 3-methyl-4-phenyl-1H-pyrazole · ligand · 3 copies · chains A
DMS · Dimethyl sulfoxide · additive · 2 copies · chains A

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

Pockets

4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	418	0.78	0.86	31	GVG
2	230	0.76	0.90	27	GVG
3	301	0.69	0.83	38	empty
4	481	0.59	0.74	43	empty

Compared structures

5AK4 · ligand complex structure of soluble epoxide hydrolase · the same entry in another collection · chain A against A, TM-score 1.00

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 P34913
Elsewhere: RCSB PDB 5AK4 · PDBe 5AK4 · UniProt P34913

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