SMTL ID : 3udd.3 (2 other biounits)

Tankyrase-1 in complex with small molecule inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.131, H.134, C.139, C.142 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.131, A:H.134, A:C.139, A:C.142 ZN.10: 4 residues within 4Å: Chain B: C.131, H.134, C.139, C.142 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.131, B:H.134, B:C.139, B:C.142

2 x 34M: 3-(4-methoxyphenyl)-5-({[4-(4-methoxyphenyl)-5-methyl-4H-1,2,4-triazol-3-yl]sulfanyl}methyl)-1,2,4-oxadiazole(Non-covalent)

34M.2: 18 residues within 4Å: Chain A: H.81, G.82, S.83, P.84, F.85, A.88, I.89, G.93, F.94, D.95, H.98, Y.100, I.109, Y.110, Y.121, G.124, I.125 Ligands: SO4.6 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.85, A:F.85, A:I.89, A:D.95, A:H.98, A:Y.100, A:Y.100, A:Y.121, A:I.125, A:I.125 Hydrogen bonds: A:D.95, A:Y.110, A:I.125 pi-Stacking: A:H.98 34M.11: 18 residues within 4Å: Chain B: H.81, G.82, S.83, P.84, F.85, A.88, I.89, K.92, G.93, F.94, D.95, H.98, Y.100, I.109, Y.110, Y.121, G.124, I.125 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:F.85, B:F.85, B:I.89, B:D.95, B:H.98, B:Y.100, B:Y.100, B:Y.110, B:Y.121, B:I.125 Hydrogen bonds: B:D.95, B:Y.110, B:I.125 pi-Stacking: B:H.81, B:H.98

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

SO4.3: 5 residues within 4Å: Chain A: R.27, H.29, R.30, K.117, Q.120 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.30, A:Q.120 Water bridges: A:D.31 Salt bridges: A:R.27, A:H.29, A:R.30, A:K.117 SO4.4: 4 residues within 4Å: Chain A: N.40, R.41, P.210, E.211 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.40, A:K.209, A:E.211 Salt bridges: A:R.41 SO4.5: 3 residues within 4Å: Chain A: R.46, H.143, T.204 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.46 Salt bridges: A:R.46, A:H.143 SO4.6: 10 residues within 4Å: Chain A: F.80, H.81, G.82, Y.110, F.111, A.112, K.117, S.118, Y.121 Ligands: 34M.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.82, A:Y.110 Salt bridges: A:H.81 SO4.12: 5 residues within 4Å: Chain B: R.27, H.29, R.30, K.117, Q.120 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:R.30 Water bridges: B:R.27, B:R.27, B:R.30, B:R.30, B:D.31, B:Q.120 Salt bridges: B:R.27, B:H.29, B:R.30, B:K.117 SO4.13: 4 residues within 4Å: Chain B: N.72, H.73, H.74, N.75 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.72, B:H.74, B:N.75 Salt bridges: B:H.73

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 4 residues within 4Å: Chain A: H.73, H.74, N.75, E.76 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.74, A:H.74, A:N.75, A:E.76, A:E.76 GOL.8: 10 residues within 4Å: Chain A: L.55, R.58, F.59, K.92, G.93, F.94, G.194, E.195, A.197, P.199 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.55, A:R.58, A:F.94, A:F.94 GOL.9: 5 residues within 4Å: Chain A: N.70, N.75, G.154, K.155, S.156 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.70, A:N.70, A:S.156, A:S.156 GOL.14: 8 residues within 4Å: Chain B: R.27, E.28, H.29, G.32, G.33, G.37, I.38, F.39 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.29, B:H.29, B:F.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shultz, M.D. et al., [1,2,4]triazol-3-ylsulfanylmethyl)-3-phenyl-[1,2,4]oxadiazoles: antagonists of the Wnt pathway that inhibit tankyrases 1 and 2 via novel adenosine pocket binding. J.Med.Chem. (2012)

Release Date

2012-02-01

Peptides

Tankyrase-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Tankyrase-1

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