SMTL ID : 7gqs.1

Crystal Structure of Werner helicase fragment 517-945 in complex with ADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

monomer

Ligands

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 11 residues within 4Å: Chain A: H.31, S.33, F.34, K.35, Q.38, G.59, Y.60, G.61, K.62, S.63, R.342 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:S.33, A:K.35, A:K.35, A:Q.38, A:G.59, A:Y.60, A:G.61, A:K.62, A:S.63, A:R.342 Water bridges: A:S.33, A:S.33, A:L.64, A:R.342 Salt bridges: A:K.62, A:R.342 pi-Stacking: A:H.31, A:H.31

3 x CD: CADMIUM ION(Non-covalent)

CD.2: 3 residues within 4Å: Chain A: C.212, G.214, E.403 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:C.212, A:E.403, A:E.403, H2O.8, H2O.9 CD.3: 4 residues within 4Å: Chain A: C.393, C.420, C.421, C.424 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.393, A:C.420, A:C.421, A:C.424 CD.4: 2 residues within 4Å: Chain A: H.43, E.48 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.43, A:E.48

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

EDO.5: 6 residues within 4Å: Chain A: F.215, D.216, R.217, Y.334, I.337, R.395 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.216, A:R.217, A:R.395 EDO.6: 8 residues within 4Å: Chain A: F.66, V.79, S.81, L.83, L.86, Q.90, Y.125, D.153 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.81 Water bridges: A:Q.90

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

CL.7: 3 residues within 4Å: Chain A: P.257, D.357, I.358 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Baltgalvis, K.A. et al., Chemoproteomic discovery of a covalent allosteric inhibitor of WRN helicase. Nature (2024)

Release Date

2024-05-01

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

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