SMTL ID : 3pki.1 (7 other biounits)

Human SIRT6 crystal structure in complex with ADP ribose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

monomer

Ligands

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

UNX.1: 2 residues within 4Å: Chain A: L.192, R.220 No protein-ligand interaction detected (PLIP) UNX.3: 1 residues within 4Å: Ligands: AR6.4 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.141, C.144, 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)

AR6.4: 22 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 Ligands: UNX.3 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:A.53, A:T.57, A:T.57, A:F.64, A:R.65, A:G.66, A:Q.113, A:T.215, A:T.215, A:S.216, A:L.217, A:N.240, A:L.241, A:Q.242, A:Q.242, A:V.258 Water bridges: A:T.57 Salt bridges: A:R.65, A:R.65, A:R.65

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

SO4.5: 5 residues within 4Å: Chain A: V.153, V.154, G.155, T.162, R.164 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.155 Salt bridges: A:R.164 SO4.6: 5 residues within 4Å: Chain A: D.25, E.29, K.33, R.253, H.255 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.25 Salt bridges: A:K.33, A:R.253, A:H.255 SO4.7: 3 residues within 4Å: Chain A: P.67, H.68, R.76 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.68, A:R.76 SO4.8: 2 residues within 4Å: Chain A: H.68, K.81 4 PLIP interactions: 4 interactions with chain A Water bridges: A:K.81, A:D.83, A:D.83 Salt bridges: A:H.68 SO4.9: 3 residues within 4Å: Chain A: R.220, P.221, N.224 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.224 Salt bridges: A:R.220

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
A

NAD-dependent deacetylase sirtuin-6

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