SMTL ID : 6wyo.2 (1 other biounit)

Crystal structure of Danio rerio histone deacetylase 6 catalytic domain 1 (CD1) H82F F202Y double mutant complexed with Trichostatin A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: D.191, H.193, D.284 Ligands: TSN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.191, A:D.191, A:H.193, A:D.284

2 x K: POTASSIUM ION(Non-covalent)

K.2: 6 residues within 4Å: Chain A: D.189, D.191, H.193, S.212, V.213, H.214 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.189, A:D.191, A:H.193, A:S.212, A:V.213 K.3: 4 residues within 4Å: Chain A: F.202, D.205, V.208, Y.241 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:F.202, A:V.208, A:Y.241, H2O.1, H2O.2

1 x TSN: TRICHOSTATIN A(Non-covalent)

TSN.4: 15 residues within 4Å: Chain A: W.39, F.43, S.111, H.153, H.154, G.162, Y.163, D.191, H.193, W.222, D.284, K.291, G.322, Y.324 Ligands: ZN.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.43, A:Y.163, A:W.222, A:W.222, A:W.222 Hydrogen bonds: A:H.154, A:Y.163, A:K.291, A:G.322

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Osko, J.D. et al., Binding of inhibitors to active-site mutants of CD1, the enigmatic catalytic domain of histone deacetylase 6. Acta Crystallogr.,Sect.F (2020)

Release Date

2020-09-02

Peptides

Histone deacetylase 6: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Histone deacetylase 6

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