SMTL ID : 8aau.1

LIM Domain Kinase 1 (LIMK1) bound to LIMKi3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.74 Å

Oligo State

monomer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: D.102, S.103, R.218 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.103, A:S.103, A:R.218, A:R.218

1 x LH0: ~{N}-[5-[2-[2,6-bis(chloranyl)phenyl]-5-[bis(fluoranyl)methyl]pyrazol-3-yl]-1,3-thiazol-2-yl]-2-methyl-propanamide(Non-covalent)

LH0.2: 17 residues within 4Å: Chain A: L.18, G.19, A.26, V.39, K.41, L.70, F.84, T.86, E.87, Y.88, I.89, G.92, H.137, N.138, L.140, A.150, D.151 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.39, A:L.70 Hydrogen bonds: A:I.89, A:I.89 Water bridges: A:D.151

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: R.95, K.99, H.137 5 PLIP interactions: 5 interactions with chain A Water bridges: A:N.220, A:N.220 Salt bridges: A:R.95, A:K.99, A:H.137 SO4.4: 4 residues within 4Å: Chain A: R.132, R.156, Y.180, T.181 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.181, A:T.181 Water bridges: A:R.132 Salt bridges: A:R.132, A:R.156 SO4.5: 4 residues within 4Å: Chain A: R.258, K.272, W.276, Q.293 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.293 Salt bridges: A:R.258

1 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 2 residues within 4Å: Chain A: D.133, D.151 6 PLIP interactions: 2 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.133, A:D.151, H2O.1, H2O.3, H2O.3, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hanke, T. et al., Development and Characterization of Type I, Type II, and Type III LIM-Kinase Chemical Probes. J.Med.Chem. (2022)

Release Date

2022-08-10

Peptides

LIM domain kinase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

LIM domain kinase 1

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