SMTL ID : 7yi7.1

Crystal structure of Human HPSE1 in complex with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-1-1-mer

Ligands

1 x IUV: (5~{S},6~{R},7~{S},8~{S})-6,7,8-tris(oxidanyl)-2-[2-[4-(trifluoromethyl)phenyl]ethyl]-5,6,7,8-tetrahydroimidazo[1,2-a]pyridine-5-carboxylic acid(Non-covalent)

IUV.1: 12 residues within 4Å: Chain A: N.67, E.68, Y.141, E.186, Y.191, G.192, G.193, Q.226, Y.234 Chain B: D.27, G.61, T.62 13 PLIP interactions: 9 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:Y.141, A:Y.191 Hydrogen bonds: A:N.67, A:N.67, A:G.192, A:G.193, A:Q.226, A:Y.234, A:Y.234, B:D.27, B:D.27, B:T.62, B:T.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Imai, Y. et al., Lead identification of novel tetrahydroimidazo[1,2-a]pyridine-5-carboxylic acid derivative as a potent heparanase-1 inhibitor. Bioorg.Med.Chem.Lett. (2022)

Release Date

2022-12-07

Peptides

Heparanase 50 kDa subunit: A
Heparanase 8 kDa subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Heparanase 50 kDa subunit

Heparanase 8 kDa subunit

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