SMTL ID : 3gv4.1

Crystal structure of human HDAC6 zinc finger domain and ubiquitin C-terminal peptide RLRGG

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.72 Å

Oligo State

monomer

Ligands

1 x LEU- ARG- GLY- GLY: ubiquitin C-terminal peptide RLRGG(Non-covalent)

LEU-ARG-GLY-GLY.1: 10 residues within 4Å: Chain A: W.35, G.46, R.47, Y.48, L.54, V.65, W.74, Y.76, Q.79, Y.81 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:W.35, A:R.47, A:R.47, A:Y.48, A:Y.48, A:Y.48, A:L.54, A:Q.79 Water bridges: A:Q.79, A:Y.81, A:Y.81 Salt bridges: A:R.47

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.37, C.40, H.56, H.62 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.37, A:C.40, A:H.56, A:H.62 ZN.3: 5 residues within 4Å: Chain A: C.25, C.28, C.45, N.50, H.52 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.25, A:C.28, A:C.45, A:H.52 ZN.4: 4 residues within 4Å: Chain A: C.5, H.7, C.75, C.78 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.5, A:H.7, A:C.75, A:C.78

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 1 residues within 4Å: Chain A: A.17 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:A.17, H2O.4, H2O.5, H2O.5, H2O.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dong, A. et al., Crystal structure of human HDAC6 zinc finger domain and ubiquitin C-terminal peptide RLRGG. To be Published

Release Date

2009-04-28

Peptides

Histone deacetylase 6: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Histone deacetylase 6

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