SMTL ID : 2h2i.1

The Structural basis of Sirtuin Substrate Affinity

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-octamer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.124, C.127, C.148, C.151 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.124, A:C.127, A:C.148, A:C.151 ZN.3: 4 residues within 4Å: Chain B: C.124, C.127, C.148, C.151 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.124, B:C.127, B:C.148, B:C.151 ZN.5: 4 residues within 4Å: Chain C: C.124, C.127, C.148, C.151 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.124, C:C.127, C:C.148, C:C.151 ZN.7: 4 residues within 4Å: Chain D: C.124, C.127, C.148, C.151 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.124, D:C.127, D:C.148, D:C.151 ZN.9: 4 residues within 4Å: Chain E: C.124, C.127, C.148, C.151 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.124, E:C.127, E:C.148, E:C.151 ZN.11: 4 residues within 4Å: Chain F: C.124, C.127, C.148, C.151 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.124, F:C.127, F:C.148, F:C.151 ZN.13: 4 residues within 4Å: Chain G: C.124, C.127, C.148, C.151 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.124, G:C.127, G:C.148, G:C.151 ZN.15: 4 residues within 4Å: Chain H: C.124, C.127, C.148, C.151 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.124, H:C.127, H:C.148, H:C.151

8 x ZPG: (2S,5R,8R,11S,14S,17S,21R)-5,8,11,14,17-PENTAMETHYL-4,7,10,13,16,19-HEXAOXADOCOSANE-2,21-DIOL(Non-covalent)

ZPG.2: 13 residues within 4Å: Chain A: F.33, R.34, F.48, F.63, I.68, I.100, H.116, I.159, V.160, F.162, L.166, Y.194 Chain G: S.206 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.48, A:F.48, A:F.63, A:I.68, A:I.159, A:V.160, A:F.162, A:L.166, A:Y.194 Hydrogen bonds: A:H.116 ZPG.4: 13 residues within 4Å: Chain B: F.33, R.34, F.48, F.63, I.68, I.100, H.116, I.159, V.160, F.162, L.166, Y.194 Chain H: S.206 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:F.48, B:F.48, B:F.63, B:I.68, B:I.159, B:V.160, B:F.162, B:L.166, B:Y.194 Hydrogen bonds: B:H.116 ZPG.6: 13 residues within 4Å: Chain C: F.33, R.34, F.48, F.63, I.68, I.100, H.116, I.159, V.160, F.162, L.166, Y.194 Chain F: S.206 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:F.48, C:F.48, C:F.63, C:I.68, C:I.159, C:V.160, C:F.162, C:L.166, C:Y.194 ZPG.8: 13 residues within 4Å: Chain D: F.33, R.34, F.48, F.63, I.68, I.100, H.116, I.159, V.160, F.162, L.166, Y.194 Chain E: S.206 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:F.48, D:F.48, D:F.63, D:I.68, D:I.159, D:V.160, D:F.162, D:L.166, D:Y.194 ZPG.10: 13 residues within 4Å: Chain C: S.206 Chain E: F.33, R.34, F.48, F.63, I.68, I.100, H.116, I.159, V.160, F.162, L.166, Y.194 9 PLIP interactions: 9 interactions with chain E Hydrophobic interactions: E:F.48, E:F.48, E:F.63, E:I.68, E:I.159, E:V.160, E:F.162, E:L.166, E:Y.194 ZPG.12: 13 residues within 4Å: Chain D: S.206 Chain F: F.33, R.34, F.48, F.63, I.68, I.100, H.116, I.159, V.160, F.162, L.166, Y.194 9 PLIP interactions: 9 interactions with chain F Hydrophobic interactions: F:F.48, F:F.48, F:F.63, F:I.68, F:I.159, F:V.160, F:F.162, F:L.166, F:Y.194 ZPG.14: 13 residues within 4Å: Chain B: S.206 Chain G: F.33, R.34, F.48, F.63, I.68, I.100, H.116, I.159, V.160, F.162, L.166, Y.194 10 PLIP interactions: 10 interactions with chain G Hydrophobic interactions: G:F.48, G:F.48, G:F.63, G:I.68, G:I.159, G:V.160, G:F.162, G:L.166, G:Y.194 Hydrogen bonds: G:H.116 ZPG.16: 13 residues within 4Å: Chain A: S.206 Chain H: F.33, R.34, F.48, F.63, I.68, I.100, H.116, I.159, V.160, F.162, L.166, Y.194 10 PLIP interactions: 10 interactions with chain H Hydrophobic interactions: H:F.48, H:F.48, H:F.63, H:I.68, H:I.159, H:V.160, H:F.162, H:L.166, H:Y.194 Hydrogen bonds: H:H.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cosgrove, M.S. et al., The structural basis of sirtuin substrate affinity. Biochemistry (2006)

Release Date

2006-12-05

Peptides

NAD-dependent deacetylase: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

NAD-dependent deacetylase

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