SMTL ID : 2hjh.1

Crystal Structure of the Sir2 deacetylase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.164, C.167, C.188, C.191 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.164, A:C.167, A:C.188, A:C.191 ZN.4: 4 residues within 4Å: Chain B: C.164, C.167, C.188, C.191 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.164, B:C.167, B:C.188, B:C.191

2 x XYQ: (2R,3R,4S,5R)-5-({[(R)-{[(R)-{[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHOXY}(HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]OXY}METHYL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL ACETATE(Covalent)

XYQ.2: 22 residues within 4Å: Chain A: K.14, G.54, A.55, G.56, T.59, D.65, F.66, R.67, Q.136, H.156, T.235, F.237, G.263, T.264, S.265, V.268, N.288, R.289, D.290, G.303, Y.304, C.305 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:A.55, A:G.56, A:T.59, A:T.59, A:F.66, A:R.67, A:R.67, A:Q.136, A:H.156, A:T.264, A:T.264, A:S.265, A:S.265, A:N.288, A:R.289, A:D.290, A:C.305 Water bridges: A:S.60, A:Q.136, A:L.266, A:D.306 Salt bridges: A:K.14, A:R.67, A:H.156 XYQ.5: 22 residues within 4Å: Chain B: K.14, G.54, A.55, G.56, T.59, D.65, F.66, R.67, Q.136, H.156, T.235, F.237, G.263, T.264, S.265, V.268, N.288, R.289, D.290, G.303, Y.304, C.305 26 PLIP interactions: 26 interactions with chain B Hydrogen bonds: B:A.55, B:G.56, B:T.59, B:T.59, B:F.66, B:R.67, B:R.67, B:H.156, B:T.264, B:T.264, B:T.264, B:S.265, B:S.265, B:N.288, B:R.289, B:D.290, B:C.305 Water bridges: B:T.59, B:Q.136, B:I.138, B:L.266, B:D.290, B:D.306 Salt bridges: B:K.14, B:R.67, B:H.156

2 x NCA: NICOTINAMIDE(Non-covalent)

NCA.3: 8 residues within 4Å: Chain A: I.63, P.64, D.65, F.66, F.72, M.106, V.107, I.138 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.63, A:F.66, A:F.66 Hydrogen bonds: A:L.108 Water bridges: A:I.138, A:D.139 NCA.6: 7 residues within 4Å: Chain B: I.63, P.64, D.65, F.66, F.72, M.106, V.107 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:I.63, B:F.72, B:V.107 Hydrogen bonds: B:K.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hall, B.E. et al., Autoregulation of the yeast Sir2 deacetylase by reaction and trapping of a pseudosubstrate motif in the active site. To be Published

Release Date

2008-04-08

Peptides

NAD-dependent histone deacetylase SIR2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NAD-dependent histone deacetylase SIR2