SMTL ID : 3f07.1 (2 other biounits)

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.30 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: D.178, H.180, D.267, G.304 Ligands: AGE.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.178, A:H.180, A:D.267 ZN.4: 6 residues within 4Å: Chain A: H.78, V.82, D.87, H.90, D.92, S.93 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.78, A:D.87, A:H.90, A:D.92

2 x K: POTASSIUM ION(Non-covalent)

K.2: 7 residues within 4Å: Chain A: D.176, L.177, D.178, H.180, S.199, L.200, H.201 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.176, A:D.178, A:H.180, A:L.200 K.3: 5 residues within 4Å: Chain A: F.189, T.192, V.195, Y.225, S.226 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:F.189, A:V.195, A:Y.225

1 x AGE: (2E)-N-hydroxy-3-[1-methyl-4-(phenylacetyl)-1H-pyrrol-2-yl]prop-2-enamide(Non-covalent)

AGE.5: 14 residues within 4Å: Chain A: K.33, D.101, H.142, H.143, F.152, D.178, H.180, G.206, F.208, D.267, M.274, G.304, Y.306 Ligands: ZN.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.208, A:F.208, A:F.208 Hydrogen bonds: A:H.143, A:D.178, A:G.304, A:Y.306

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
A

Histone deacetylase 8

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