SMTL ID : 8qt1.1

Crystal structure of human Sirt2 in complex with the super-slow substrate TNFn-5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.143, C.148, C.169, C.172 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.143, A:C.148, A:C.169, A:C.172

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

EDO.2: 3 residues within 4Å: Chain A: A.267, W.268, L.269 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.267, A:W.268, A:L.269 EDO.3: 4 residues within 4Å: Chain A: Q.20, K.106, W.285, E.288 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.20, A:K.106

1 x WU3: (2S)-2-dodecylsulfanylpropanoic acid(Non-covalent)

WU3.4: 12 residues within 4Å: Chain A: F.44, R.45, F.67, A.83, L.86, P.88, F.91, I.117, H.135, F.138, V.181 Chain B: K.6 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.44, A:F.44, A:F.67, A:F.67, A:L.86, A:F.91, A:I.117, A:I.117, A:F.138, A:F.138, A:F.138 Hydrogen bonds: A:R.45

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Friedrich, F. et al., New Super-Slow Substrates as novel Sirtuin-Inhibitors. To Be Published

Release Date

2024-10-23

Peptides

NAD-dependent protein deacetylase sirtuin-2: A
Peptide-based super-slow substrate TNFn-5: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NAD-dependent protein deacetylase sirtuin-2

Peptide-based super-slow substrate TNFn-5

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