SMTL ID : 4wab.1

Crystal structure of mPGES1 solved by native-SAD phasing

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-trimer

Ligands

3 x GSH: GLUTATHIONE(Non-covalent)

GSH.1: 14 residues within 4Å: Chain A: R.68, R.71, N.72, E.75, H.111, Y.115, R.124, S.125, Y.128 Chain B: A.29, T.32, R.36, L.67 Ligands: LVJ.2 11 PLIP interactions: 3 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:T.32 Water bridges: B:H.70 Salt bridges: B:R.36, A:R.71, A:R.71 Hydrogen bonds: A:R.71, A:N.72, A:E.75, A:Y.115, A:Y.115, A:R.124 GSH.3: 14 residues within 4Å: Chain B: R.68, R.71, N.72, E.75, H.111, Y.115, R.124, S.125, Y.128 Chain C: A.29, T.32, R.36, L.67 Ligands: LVJ.4 11 PLIP interactions: 3 interactions with chain C, 8 interactions with chain B Hydrophobic interactions: C:T.32 Water bridges: C:H.70 Salt bridges: C:R.36, B:R.71, B:R.71 Hydrogen bonds: B:R.71, B:N.72, B:E.75, B:Y.115, B:Y.115, B:R.124 GSH.5: 14 residues within 4Å: Chain A: A.29, T.32, R.36, L.67 Chain C: R.68, R.71, N.72, E.75, H.111, Y.115, R.124, S.125, Y.128 Ligands: LVJ.6 11 PLIP interactions: 8 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:R.71, C:N.72, C:E.75, C:Y.115, C:Y.115, C:R.124 Salt bridges: C:R.71, C:R.71, A:R.36 Hydrophobic interactions: A:T.32 Water bridges: A:H.70

3 x LVJ: 2-[[2,6-bis(chloranyl)-3-[(2,2-dimethylpropanoylamino)methyl]phenyl]amino]-1-methyl-6-(2-methyl-2-oxidanyl-propoxy)-N-[2,2,2-tris(fluoranyl)ethyl]benzimidazole-5-carboxamide(Non-covalent)

LVJ.2: 14 residues within 4Å: Chain A: A.121, P.122, S.125, V.126, T.129, L.130 Chain B: G.33, Q.34, L.37, F.42, D.47, R.50, H.51 Ligands: GSH.1 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:P.122, A:V.126, B:F.42 Hydrogen bonds: A:S.125, B:Q.34, B:H.51 Halogen bonds: A:V.126 LVJ.4: 14 residues within 4Å: Chain B: A.121, P.122, S.125, V.126, T.129, L.130 Chain C: G.33, Q.34, L.37, F.42, D.47, R.50, H.51 Ligands: GSH.3 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:P.122, B:V.126, C:F.42 Hydrogen bonds: B:S.125, C:Q.34, C:H.51 Halogen bonds: B:V.126 LVJ.6: 14 residues within 4Å: Chain A: G.33, Q.34, L.37, F.42, D.47, R.50, H.51 Chain C: A.121, P.122, S.125, V.126, T.129, L.130 Ligands: GSH.5 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:P.122, C:V.126, A:F.42 Hydrogen bonds: C:S.125, A:Q.34, A:H.51 Halogen bonds: C:V.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Weinert, T. et al., Fast native-SAD phasing for routine macromolecular structure determination. Nat.Methods (2015)

Release Date

2014-12-10

Peptides

Prostaglandin E synthase,Leukotriene C4 synthase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Membrane

We predict this structure to be a membrane protein.
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Prostaglandin E synthase,Leukotriene C4 synthase

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