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Crystal structure of soluble epoxide hydrolase in complex with fragment inhibitor

Source organism: Homo sapiens
Biochemical function: lysophosphatidic acid phosphatase activity
Biological process: epoxide metabolic process
Cellular component: extracellular exosome

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EC 3.3.2.10: Soluble epoxide hydrolase

Reaction catalysed:
An epoxide + H(2)O = a glycol
Systematic name:
Epoxide hydrolase
Alternative Name(s):
  • Arene-oxide hydratase
  • Aryl epoxide hydrase
  • Cytosolic epoxide hydrolase
  • Epoxide hydrase
  • Epoxide hydratase
  • SEH
  • Trans-stilbene oxide hydrolase

EC 3.1.3.76: Lipid-phosphate phosphatase

Reaction catalysed:
(9S,10S)-10-hydroxy-9-(phosphonooxy)octadecanoate + H(2)O = (9S,10S)-9,10-dihydroxyoctadecanoate + phosphate
Systematic name:
(9S,10S)-10-hydroxy-9-(phosphonooxy)octadecanoate phosphohydrolase
Alternative Name(s):
  • Dihydroxy fatty acid phosphatase
  • Hydroxy fatty acid phosphatase
  • Hydroxy lipid phosphatase
  • SEH
  • Soluble epoxide hydrolase

GO terms

Sequence families

Pfam Protein families (Pfam)
PF00561
Domain description: alpha/beta hydrolase fold
Occurring in:
  1. Bifunctional epoxide hydrolase 2
The deposited structure of PDB entry 3wkd contains 1 copy of Pfam domain PF00561 (alpha/beta hydrolase fold) in Bifunctional epoxide hydrolase 2. Showing 1 copy in chain A.

PF00702
Domain description: haloacid dehalogenase-like hydrolase
Occurring in:
  1. Bifunctional epoxide hydrolase 2
The deposited structure of PDB entry 3wkd contains 1 copy of Pfam domain PF00702 (haloacid dehalogenase-like hydrolase) in Bifunctional epoxide hydrolase 2. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR000639
Domain description: Epoxide hydrolase-like
Occurring in:
  1. Bifunctional epoxide hydrolase 2
IPR000073
Domain description: Alpha/beta hydrolase fold-1
Occurring in:
  1. Bifunctional epoxide hydrolase 2
IPR029058
Domain description: Alpha/Beta hydrolase fold
Occurring in:
  1. Bifunctional epoxide hydrolase 2
IPR041492
Domain description: Haloacid dehalogenase-like hydrolase
Occurring in:
  1. Bifunctional epoxide hydrolase 2
IPR006439
Domain description: HAD hydrolase, subfamily IA
Occurring in:
  1. Bifunctional epoxide hydrolase 2
IPR023198
Domain description: Phosphoglycolate phosphatase-like, domain 2
Occurring in:
  1. Bifunctional epoxide hydrolase 2
IPR023214
Domain description: HAD superfamily
Occurring in:
  1. Bifunctional epoxide hydrolase 2
IPR011945
Domain description: Predicted HAD-superfamily phosphatase, subfamily IA/Epoxide hydrolase, N-terminal
Occurring in:
  1. Bifunctional epoxide hydrolase 2
IPR036412
Domain description: HAD-like superfamily
Occurring in:
  1. Bifunctional epoxide hydrolase 2

Structure domains

CATH CATH domains
3.40.50.1000
Class: Alpha Beta
Architecture: 3-Layer(aba) Sandwich
Topology: Rossmann fold
Homology: HAD superfamily/HAD-like
Occurring in:
  1. Bifunctional epoxide hydrolase 2
The deposited structure of PDB entry 3wkd contains 1 copy of CATH domain 3.40.50.1000 (Rossmann fold) in Bifunctional epoxide hydrolase 2. Showing 1 copy in chain A.
3.40.50.1820
Class: Alpha Beta
Architecture: 3-Layer(aba) Sandwich
Topology: Rossmann fold
Homology: alpha/beta hydrolase
Occurring in:
  1. Bifunctional epoxide hydrolase 2
The deposited structure of PDB entry 3wkd contains 1 copy of CATH domain 3.40.50.1820 (Rossmann fold) in Bifunctional epoxide hydrolase 2. Showing 1 copy in chain A.
1.10.150.240
Class: Mainly Alpha
Architecture: Orthogonal Bundle
Topology: DNA polymerase; domain 1
Homology: Putative phosphatase; domain 2
Occurring in:
  1. Bifunctional epoxide hydrolase 2
The deposited structure of PDB entry 3wkd contains 1 copy of CATH domain 1.10.150.240 (DNA polymerase; domain 1) in Bifunctional epoxide hydrolase 2. Showing 1 copy in chain A.

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