SMTL ID : 1yc2.4 (9 other biounits)

Sir2Af2-NAD-ADPribose-nicotinamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.126, C.129, C.150, C.153 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.126, A:C.129, A:C.150, A:C.153 ZN.2: 3 residues within 4Å: Chain A: H.17, E.180, H.183 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.17, A:E.180, A:H.183

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain A: T.132, R.161 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.123, A:R.161

1 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.4: 22 residues within 4Å: Chain A: G.23, A.24, G.25, A.28, E.29, T.34, F.35, R.36, E.38, Q.100, G.191, S.192, S.193, V.195, V.196, N.217, A.218, E.219, G.233, K.234, A.235 Ligands: PG4.6 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:V.195 Hydrogen bonds: A:A.24, A:E.29, A:F.35, A:R.36, A:R.36, A:E.38, A:S.193, A:S.193, A:S.193, A:S.193, A:A.218, A:E.219, A:E.219, A:E.219, A:A.235

1 x NCA: NICOTINAMIDE(Non-covalent)

NCA.5: 7 residues within 4Å: Chain A: A.24, P.33, T.34, F.35, N.101, I.102, D.103 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.27, A:I.102, A:D.103, A:D.103 pi-Stacking: A:F.35

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.6: 8 residues within 4Å: Chain A: F.35, A.51, F.63, S.67, H.118, V.163, F.165 Ligands: NAD.4 No protein-ligand interaction detected (PLIP)

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.7: 5 residues within 4Å: Chain A: I.32, K.71, D.72, M.121, W.135 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Avalos, J.L. et al., Mechanism of Sirtuin Inhibition by Nicotinamide: Altering the NAD(+) Cosubstrate Specificity of a Sir2 Enzyme. Mol.Cell (2005)

Release Date

2005-03-29

Peptides

NAD-dependent deacetylase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

NAD-dependent deacetylase 2

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