SMTL ID : 4l3o.3 (3 other biounits)

Crystal Structure of SIRT2 in complex with the macrocyclic peptide S2iL5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.52 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.141, C.146, C.167, C.170 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.141, A:C.146, A:C.167, A:C.170

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 7 residues within 4Å: Chain A: Q.211, E.234, K.235, A.236, G.237, Q.238, S.239 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.237, A:Q.238, A:Q.238, A:S.239 Water bridges: A:S.209 Salt bridges: A:E.234

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

EDO.3: 6 residues within 4Å: Chain A: R.23, R.24, G.105, L.106, L.107, L.108 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.105 EDO.4: 5 residues within 4Å: Chain A: L.8, F.255, D.263, V.264, A.265 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.265, A:A.265 EDO.5: 3 residues within 4Å: Chain B: R.9, R.10, N.12 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.10, B:R.10, B:N.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yamagata, K. et al., Structural Basis for Potent Inhibition of SIRT2 Deacetylase by a Macrocyclic Peptide Inducing Dynamic Structural Change. Structure (2013)

Release Date

2014-02-19

Peptides

NAD-dependent protein deacetylase sirtuin-2: A
cyclic peptide S2iL5: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
G

NAD-dependent protein deacetylase sirtuin-2

cyclic peptide S2iL5

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