SMTL ID : 3pki.6 (7 other biounits)

Human SIRT6 crystal structure in complex with ADP ribose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.141, C.144, T.146, C.166, C.177 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.141, A:C.144, A:C.166, A:C.177

1 x AR6: [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE(Non-covalent)

AR6.2: 21 residues within 4Å: Chain A: G.52, A.53, G.54, T.57, D.63, F.64, R.65, W.71, Q.113, H.133, W.188, G.214, T.215, S.216, I.219, N.240, L.241, Q.242, G.256, Y.257, V.258 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:A.53, A:T.57, A:D.63, A:F.64, A:R.65, A:Q.113, A:H.133, A:S.216, A:N.240, A:L.241, A:Q.242, A:Q.242, A:V.258 Water bridges: A:A.58, A:D.259 Salt bridges: A:R.65, A:R.65, A:R.65

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

SO4.3: 3 residues within 4Å: Chain A: R.90, A.275, W.276 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.276 Water bridges: A:R.90 Salt bridges: A:R.90 SO4.4: 1 residues within 4Å: Chain A: R.232 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.232

6 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.5: 2 residues within 4Å: Ligands: UNX.6, UNX.8 No protein-ligand interaction detected (PLIP) UNX.6: 4 residues within 4Å: Chain A: L.186, D.187 Ligands: UNX.5, UNX.7 No protein-ligand interaction detected (PLIP) UNX.7: 2 residues within 4Å: Chain A: W.188 Ligands: UNX.6 No protein-ligand interaction detected (PLIP) UNX.8: 5 residues within 4Å: Chain A: L.192, I.219, R.220 Ligands: UNX.5, UNX.9 No protein-ligand interaction detected (PLIP) UNX.9: 2 residues within 4Å: Chain A: D.190 Ligands: UNX.8 No protein-ligand interaction detected (PLIP) UNX.10: 2 residues within 4Å: Chain A: F.82, T.84 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pan, P.W. et al., Structure and biochemical functions of SIRT6. J.Biol.Chem. (2011)

Release Date

2011-01-26

Peptides

NAD-dependent deacetylase sirtuin-6: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

NAD-dependent deacetylase sirtuin-6

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