SMTL ID : 3glr.1

Crystal Structure of human SIRT3 with acetyl-lysine AceCS2 peptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-2-2-mer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.142, C.145, C.166, C.169 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.142, A:C.145, A:C.166, A:C.169 ZN.6: 4 residues within 4Å: Chain C: C.142, C.145, C.166, C.169 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.142, C:C.145, C:C.166, C:C.169

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

SO4.2: 2 residues within 4Å: Chain A: V.163, R.165 5 PLIP interactions: 5 interactions with chain A Water bridges: A:K.76, A:V.163, A:R.165, A:R.165 Salt bridges: A:R.165 SO4.5: 4 residues within 4Å: Chain B: R.2, S.3 Chain C: P.185, Q.186 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:S.3, B:S.3, C:Q.186, C:Q.186 SO4.7: 2 residues within 4Å: Chain C: V.163, R.165 5 PLIP interactions: 5 interactions with chain C Water bridges: C:K.76, C:V.163, C:R.165, C:R.165 Salt bridges: C:R.165 SO4.10: 4 residues within 4Å: Chain A: P.185, Q.186 Chain D: R.2, S.3 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:Q.186, A:Q.186, D:S.3, D:S.3

2 x BCT: BICARBONATE ION(Non-functional Binders)

BCT.3: 3 residues within 4Å: Chain A: R.21, A.22, Q.24 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.21, A:Q.24 BCT.8: 3 residues within 4Å: Chain C: R.21, A.22, Q.24 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.21, C:Q.24

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 3 residues within 4Å: Chain A: H.103, G.106, K.129 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.129 Water bridges: A:G.106, A:G.106 GOL.9: 3 residues within 4Å: Chain C: H.103, G.106, K.129 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:K.129 Water bridges: C:G.106, C:G.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jin, L. et al., Crystal Structures of Human SIRT3 Displaying Substrate-induced Conformational Changes. J.Biol.Chem. (2009)

Release Date

2009-06-16

Peptides

NAD-dependent deacetylase sirtuin-3, mitochondrial: AC
Acetyl-coenzyme A synthetase 2-like, mitochondrial: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

NAD-dependent deacetylase sirtuin-3, mitochondrial

Acetyl-coenzyme A synthetase 2-like, mitochondrial

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