Structure of PDB 1ek2 Chain B Binding Site BS01

Receptor Information
>1ek2 Chain B (length=541) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RVAAFDLDGVLALPSIAGAFRRSEEALALPRDFLLGAYQTEFPEGPTEQL
MKGKITFSQWVPLMDESYRKSSKACGANLPENFSISQIFSQAMAARSINR
PMLQAAIALKKKGFTTCIVTNNWLDDGDKRDSLAQMMCELSQHFDFLIES
CQVGMIKPEPQIYNFLLDTLKAKPNEVVFLDDFGSNLKPARDMGMVTILV
HNTASALRELEKVTGTQFPEAPLPVPCNPNDVSHGYVTVKPGIRLHFVEM
GSGPALCLCHGFPESWFSWRYQIPALAQAGFRVLAIDMKGYGDSSSPPEI
EEYAMELLCKEMVTFLDKLGIPQAVFIGHDWAGVMVWNMALFYPERVRAV
ASLNTPFMPPDPDVSPMKVIRSIPVFNYQLYFQEPGVAEAELEKNMSRTF
KSFFRASDETGFIAVHKATEIGGILVNTPEDPNLSKITTEEEIEFYIQQF
KKTGFRGPLNWYRNTERNWKWSCKGLGRKILVPALMVTAEKDIVLRPEMS
KNMEKWIPFLKRGHIEDCGHWTQIEKPTEVNQILIKWLQTE
Ligand information
Ligand IDCDU
InChIInChI=1S/C17H34N2O/c1-2-3-4-5-6-7-8-12-15-18-17(20)19-16-13-10-9-11-14-16/h16H,2-15H2,1H3,(H2,18,19,20)
InChIKeyLPXYBLIRYGCMPQ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341
OpenEye OEToolkits 1.5.0		CCCCCCCCCCNC(=O)NC1CCCCC1
ACDLabs 10.04O=C(NC1CCCCC1)NCCCCCCCCCC
FormulaC17 H34 N2 O
NameN-CYCLOHEXYL-N'-DECYLUREA
ChEMBLCHEMBL67158
DrugBankDB03677
ZINCZINC000014880861
PDB chain1ek2 Chain B Residue 1200 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB1ek2 Binding of alkylurea inhibitors to epoxide hydrolase implicates active site tyrosines in substrate activation.
Resolution3.0 Å
Binding residue
(original residue number in PDB)		D333 M361 Y381 F406 Y465 H523 W524
Binding residue
(residue number reindexed from 1)		D330 M358 Y378 F403 Y462 H520 W521
Annotation score1
Binding affinityBindingDB: IC50=50nM
Enzymatic activity
Catalytic site (original residue number in PDB) F265 D333 W334 N357 I376 Y381 Y465 D495 H523
Catalytic site (residue number reindexed from 1) F262 D330 W331 N354 I373 Y378 Y462 D492 H520
Enzyme Commision number 3.1.3.76: lipid-phosphate phosphatase.
3.3.2.10: soluble epoxide hydrolase.
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003824 catalytic activity
GO:0004301 epoxide hydrolase activity
GO:0015643 toxic substance binding
GO:0016787 hydrolase activity
GO:0016791 phosphatase activity
GO:0033885 10-hydroxy-9-(phosphonooxy)octadecanoate phosphatase activity
GO:0042577 lipid phosphatase activity
GO:0042803 protein homodimerization activity
GO:0046872 metal ion binding
GO:0052642 lysophosphatidic acid phosphatase activity
Biological Process
GO:0006629 lipid metabolic process
GO:0009056 catabolic process
GO:0009636 response to toxic substance
GO:0010628 positive regulation of gene expression
GO:0016311 dephosphorylation
GO:0042632 cholesterol homeostasis
GO:0046272 stilbene catabolic process
GO:0046839 phospholipid dephosphorylation
GO:0090181 regulation of cholesterol metabolic process
GO:0097176 epoxide metabolic process
Cellular Component
GO:0005737 cytoplasm
GO:0005777 peroxisome
GO:0005829 cytosol

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Cellular Component
External links
PDB RCSB:1ek2, PDBe:1ek2, PDBj:1ek2
PDBsum1ek2
PubMed10747889
UniProtP34914|HYES_MOUSE Bifunctional epoxide hydrolase 2 (Gene Name=Ephx2)

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