SMTL ID : 2vqm.1

Structure of HDAC4 catalytic domain bound to a hydroxamic acid inhbitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x K: POTASSIUM ION(Non-covalent)

K.1: 6 residues within 4Å: Chain A: D.194, D.196, H.198, S.217, L.218, H.219 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.194, A:D.194, A:D.196, A:H.198, A:S.217 K.2: 4 residues within 4Å: Chain A: F.207, D.210, V.213, F.244 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:F.207, A:D.210, A:V.213, A:F.244, H2O.9

1 x HA3: N-hydroxy-5-[(3-phenyl-5,6-dihydroimidazo[1,2-a]pyrazin-7(8H)-yl)carbonyl]thiophene-2-carboxamide

HA3.3: 9 residues within 4Å: Chain A: P.156, G.167, F.168, H.198, F.227, D.290, L.299, G.330 Ligands: ZN.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.168, A:F.168, A:F.227 Hydrogen bonds: A:G.167 Water bridges: A:G.331 pi-Stacking: A:H.198

2 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: D.196, H.198, D.290 Ligands: HA3.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.196, A:D.196, A:H.198, A:D.290, H2O.14 ZN.5: 4 residues within 4Å: Chain A: H.21, C.23, H.34, C.107 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.21, A:C.23, A:H.34, A:C.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bottomley, M.J. et al., Structural and Functional Analysis of the Human Hdac4 Catalytic Domain Reveals a Regulatory Zinc-Binding Domain. J.Biol.Chem. (2008)

Release Date

2008-07-08

Peptides

HISTONE DEACETYLASE 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

HISTONE DEACETYLASE 4

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