SMTL ID : 4buz.1

SIR2 COMPLEX STRUCTURE MIXTURE OF EX-527 INHIBITOR AND REACTION PRODUCTS OR OF REACTION SUBSTRATES P53 PEPTIDE AND NAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x ARG- HIS- LYS- ALY- LEU- MET- PHE: CELLULAR TUMOR ANTIGEN P53(Non-covalent)

ARG-HIS-LYS-ALY-LEU-MET-PHE.1: 16 residues within 4Å: Chain A: H.116, V.160, F.161, F.162, G.163, E.164, N.165, L.166, V.192, V.193, Y.194, P.195, E.198 Ligands: OCZ.2, NAD.3, OAD.4 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:F.162, A:L.166, A:V.192, A:Y.194 Hydrogen bonds: A:H.116, A:V.160, A:G.163, A:E.164, A:N.165, A:N.165, A:L.166, A:V.192, A:Y.194, A:Y.194 Water bridges: A:E.198 Salt bridges: A:E.198

1 x OCZ: (1S)-6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1- carboxamide(Non-covalent)

OCZ.2: 15 residues within 4Å: Chain A: I.30, P.31, F.33, F.48, M.71, Q.98, N.99, I.100, D.101, H.116, I.159, V.160 Ligands: ARG-HIS-LYS-ALY-LEU-MET-PHE.1, NAD.3, OAD.4 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:I.30, A:F.33, A:I.100, A:I.100, A:I.100, A:H.116 Hydrogen bonds: A:Q.98, A:I.100, A:D.101, A:D.101, A:D.101 pi-Stacking: A:F.33, A:F.48

1 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Covalent)

NAD.3: 26 residues within 4Å: Chain A: G.21, A.22, G.23, T.26, P.27, I.30, P.31, D.32, F.33, Q.98, N.99, I.100, D.101, H.116, G.188, S.189, S.190, V.193, N.214, L.215, M.230, D.231, V.232 Ligands: ARG-HIS-LYS-ALY-LEU-MET-PHE.1, OCZ.2, OAD.4 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:A.22, A:F.33 Hydrogen bonds: A:A.22, A:G.23, A:T.26, A:T.26, A:D.32, A:F.33, A:I.100, A:D.101, A:D.101, A:D.101, A:H.116, A:S.190, A:S.190, A:N.214, A:L.215, A:V.232 Water bridges: A:L.191

1 x OAD: 2'-O-ACETYL ADENOSINE-5-DIPHOSPHORIBOSE(Non-covalent)

OAD.4: 25 residues within 4Å: Chain A: G.21, A.22, G.23, T.26, P.27, D.32, F.33, F.48, Q.98, H.116, V.160, F.162, G.188, S.189, S.190, L.191, V.193, N.214, L.215, M.230, D.231, V.232 Ligands: ARG-HIS-LYS-ALY-LEU-MET-PHE.1, OCZ.2, NAD.3 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.48, A:F.162 Hydrogen bonds: A:A.22, A:G.23, A:T.26, A:T.26, A:F.33, A:G.188, A:S.190, A:L.191, A:N.214, A:L.215, A:V.232

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 4 residues within 4Å: Chain A: C.124, C.127, C.148, C.151 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.124, A:C.127, A:C.148, A:C.151

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 4 residues within 4Å: Chain A: Y.123, E.128, K.130, N.158 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.128, A:K.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gertz, M. et al., Ex-527 Inhibits Sirtuins by Exploiting Their Unique Nad+-Dependent Deacetylation Mechanism. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2013-07-17

Peptides

NAD-DEPENDENT PROTEIN DEACETYLASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

NAD-DEPENDENT PROTEIN DEACETYLASE

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