SMTL ID : 3pkj.5 (6 other biounits)

Human SIRT6 crystal structure in complex with 2'-N-Acetyl ADP ribose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.12 Å

Oligo State

monomer

Ligands

1 x A2N: [(2R,3S,4R,5R)-4-(acetylamino)-3,5-dihydroxytetrahydrofuran-2-yl]methyl [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate(Non-covalent)

A2N.1: 20 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, L.186, G.214, T.215, S.216, N.240, L.241, Q.242, G.256, Y.257, V.258 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:A.53, A:G.54, A:T.57, A:F.64, A:R.65, A:Q.113, A:H.133, A:T.215, A:S.216, A:S.216, A:L.217, A:N.240, A:L.241, A:Q.242, A:Q.242, A:V.258 Water bridges: A:A.58

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

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

SO4.3: 3 residues within 4Å: Chain A: H.68, K.81, D.83 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.81, A:D.83 Salt bridges: A:H.68 SO4.4: 4 residues within 4Å: Chain A: E.29, K.33, R.253, H.255 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.33, A:H.255 SO4.5: 1 residues within 4Å: Chain A: R.164 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.164 Salt bridges: A:R.164

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

UNX.6: 1 residues within 4Å: Chain A: D.127 No protein-ligand interaction detected (PLIP) UNX.7: 1 residues within 4Å: Chain A: W.42 No protein-ligand interaction detected (PLIP) UNX.8: 6 residues within 4Å: Chain A: N.114, D.116, G.117, L.118, H.119, E.131 No protein-ligand interaction detected (PLIP) UNX.9: 1 residues within 4Å: Chain A: A.13 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
E

NAD-dependent deacetylase sirtuin-6

Related Entries With Identical Sequence