SMTL ID : 2h59.1

Sir2 H116A-deacetylated p53 peptide-3'-o-acetyl ADP ribose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-2-2-mer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.124, C.127, K.129, C.148, C.151 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.127, A:C.148, A:C.151 ZN.3: 4 residues within 4Å: Chain B: C.124, C.127, C.148, C.151 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.124, B:C.127, B:C.148, B:C.151

1 x APR: ADENOSINE-5-DIPHOSPHORIBOSE(Non-covalent)

APR.2: 21 residues within 4Å: Chain A: G.21, A.22, G.23, T.26, P.27, D.32, F.33, R.34, Y.40, Q.98, F.162, G.188, S.189, S.190, V.193, N.214, L.215, M.230, D.231, V.232 Chain C: K.11 24 PLIP interactions: 21 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:A.22, A:G.23, A:T.26, A:T.26, A:D.32, A:F.33, A:R.34, A:R.34, A:G.35, A:Y.40, A:Q.98, A:S.190, A:S.190, A:L.191, A:N.214, A:L.215, A:L.215, A:V.232, C:K.11, C:K.11 Water bridges: A:L.215 Salt bridges: A:R.34, A:R.34, C:K.11

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

3OD.4: 22 residues within 4Å: Chain B: G.21, A.22, G.23, T.26, P.27, D.32, F.33, R.34, Y.40, Q.98, A.116, F.162, G.188, S.189, S.190, V.193, N.214, L.215, M.230, D.231, V.232 Chain D: K.11 24 PLIP interactions: 20 interactions with chain B, 4 interactions with chain D Hydrophobic interactions: B:A.116 Hydrogen bonds: B:A.22, B:G.23, B:T.26, B:T.26, B:F.33, B:R.34, B:R.34, B:G.35, B:Y.40, B:S.189, B:S.190, B:S.190, B:N.214, B:L.215, B:D.231, B:V.232, D:K.11, D:K.11 Water bridges: B:L.191 Salt bridges: B:R.34, B:R.34, D:K.11, D:K.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hoff, K.G. et al., Insights into the Sirtuin Mechanism from Ternary Complexes Containing NAD(+) and Acetylated Peptide. Structure (2006)

Release Date

2006-09-05

Peptides

NAD-dependent deacetylase: AB
Cellular tumor antigen p53: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
E

NAD-dependent deacetylase

Cellular tumor antigen p53

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