SMTL ID : 9owa.1

Human WRN helicase in complex with allosteric ligand Compound 2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.409, C.436, C.437, C.440 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.409, A:C.436, A:C.437, A:C.440

1 x 01: N-[2-chloro-4-(trifluoromethyl)phenyl]-2-[(5'R,10'R)-2'-(3,6-dihydro-2H-pyran-4-yl)-1-(5-hydroxy-6-methylpyrimidine-4-carbonyl)-5'-methyl-9'-oxo-5',9'-dihydrospiro[piperidine-4,8'-pyrano[4,3-d][1,2,4]triazolo[1,5-a]pyrimidin]-4'(6'H)-yl]acetamide

01.2: 22 residues within 4Å: Chain A: A.207, R.212, I.226, C.228, F.231, D.232, R.233, L.236, L.238, G.326, M.327, G.328, N.330, Y.350, Q.351, I.353, G.354, R.355, R.358, R.411, I.414, L.415 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:A.207, A:F.231, A:R.233, A:Y.350, A:Y.350, A:I.353, A:L.415 Hydrogen bonds: A:R.233, A:G.328, A:Y.350, A:R.355 Water bridges: A:R.355, A:R.358, A:R.358, A:R.358 Halogen bonds: A:Y.350, A:R.411

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 1 residues within 4Å: Chain A: N.114 Ligand excluded by PLIP

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 6 residues within 4Å: Chain A: K.42, M.43, Y.44, F.45, G.46, S.113 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.42, A:S.113 EDO.5: 7 residues within 4Å: Chain A: F.82, V.95, S.97, L.99, M.103, Q.106, D.169 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.97, A:S.97, A:D.169 EDO.6: 2 residues within 4Å: Chain A: R.241, P.253 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.241, A:R.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, H. et al., High-throughput evaluation of novel WRN inhibitors. Slas Discov (2025)

Release Date

2025-09-10

Peptides

Bifunctional 3'-5' exonuclease/ATP-dependent helicase WRN: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bifunctional 3'-5' exonuclease/ATP-dependent helicase WRN

Related Entries With Identical Sequence