SMTL ID : 3f0r.2 (2 other biounits)

Crystal Structure Analysis of Human HDAC8 complexed with trichostatin A in a new monoclinic crystal form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.54 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: D.178, H.180, D.267 Ligands: TSN.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.178, A:H.180, A:D.267

2 x K: POTASSIUM ION(Non-covalent)

K.2: 4 residues within 4Å: Chain A: F.189, T.192, V.195, Y.225 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:F.189, A:T.192, A:V.195, H2O.1, H2O.1 K.3: 7 residues within 4Å: Chain A: D.176, L.177, D.178, H.180, S.199, L.200, H.201 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.176, A:D.176, A:D.178, A:H.180, A:L.200

2 x TSN: TRICHOSTATIN A(Non-covalent)

TSN.4: 13 residues within 4Å: Chain A: Y.100, D.101, H.142, H.143, G.151, F.152, D.178, H.180, D.267, M.274, Y.306 Ligands: ZN.1, TSN.5 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.100, A:F.152, A:F.152 Hydrogen bonds: A:H.142, A:H.143, A:G.304, A:Y.306 TSN.5: 8 residues within 4Å: Chain A: P.35, Y.111, W.141, F.152, P.273, M.274, Y.306 Ligands: TSN.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:P.35, A:F.152, A:F.152, A:P.273, A:Y.306 Hydrogen bonds: A:P.273 pi-Stacking: A:F.152

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dowling, D.P. et al., Structural studies of human histone deacetylase 8 and its site-specific variants complexed with substrate and inhibitors. Biochemistry (2008)

Release Date

2008-12-30

Peptides

Histone deacetylase 8: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Histone deacetylase 8

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