SMTL ID : 4al1.1

Crystal structure of Human PS-1 GSH-analog complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-trimer

Ligands

3 x BOG: octyl beta-D-glucopyranoside(Non-covalent)

BOG.1: 12 residues within 4Å: Chain A: A.123, P.124, S.127 Chain B: G.35, Q.36, R.38, L.39, F.44, D.49, R.52, H.53 Ligands: 48T.5 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Q.36 Hydrogen bonds: B:G.35, B:D.49, B:R.52, A:S.127 Water bridges: B:N.46, A:R.126 BOG.6: 12 residues within 4Å: Chain B: A.123, P.124, S.127 Chain C: G.35, Q.36, R.38, L.39, F.44, D.49, R.52, H.53 Ligands: 48T.10 7 PLIP interactions: 5 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:Q.36 Hydrogen bonds: C:G.35, C:D.49, C:R.52, B:S.127 Water bridges: C:N.46, B:R.126 BOG.11: 12 residues within 4Å: Chain A: G.35, Q.36, R.38, L.39, F.44, D.49, R.52, H.53 Chain C: A.123, P.124, S.127 Ligands: 48T.15 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:Q.36 Hydrogen bonds: A:G.35, A:D.49, A:R.52, C:S.127 Water bridges: A:N.46, C:R.126

6 x PLM: PALMITIC ACID(Non-covalent)

PLM.2: 7 residues within 4Å: Chain A: K.26, V.29, V.115, L.118, G.119, K.120 Ligands: PLM.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.26, A:V.29, A:V.115, A:L.118 PLM.3: 3 residues within 4Å: Chain A: D.64, L.118 Ligands: PLM.2 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.118 PLM.7: 7 residues within 4Å: Chain B: K.26, V.29, V.115, L.118, G.119, K.120 Ligands: PLM.8 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:K.26, B:V.29, B:V.115, B:L.118 PLM.8: 3 residues within 4Å: Chain B: D.64, L.118 Ligands: PLM.7 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.118 PLM.12: 7 residues within 4Å: Chain C: K.26, V.29, V.115, L.118, G.119, K.120 Ligands: PLM.13 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:K.26, C:V.29, C:V.115, C:L.118 PLM.13: 3 residues within 4Å: Chain C: D.64, L.118 Ligands: PLM.12 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.118

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

SO4.4: 3 residues within 4Å: Chain A: A.123, P.124 Chain B: R.52 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.52 SO4.9: 3 residues within 4Å: Chain B: A.123, P.124 Chain C: R.52 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:R.52 SO4.14: 3 residues within 4Å: Chain A: R.52 Chain C: A.123, P.124 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.52

3 x 48T: L-gamma-glutamyl-S-(2-biphenyl-4-yl-2-oxoethyl)-L-cysteinylglycine(Non-covalent)

48T.5: 18 residues within 4Å: Chain A: R.70, N.74, E.77, H.113, Y.117, R.126, S.127, Y.130, T.131, Q.134 Chain B: Y.28, A.31, I.32, T.34, G.35, R.38, L.69 Ligands: BOG.1 13 PLIP interactions: 8 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:Q.134, A:Q.134, B:Y.28, B:I.32 Hydrogen bonds: A:N.74, A:E.77, A:Y.117, A:R.126 Water bridges: A:Y.130, B:N.46, B:N.46 pi-Stacking: A:Y.130 Salt bridges: B:R.38 48T.10: 18 residues within 4Å: Chain B: R.70, N.74, E.77, H.113, Y.117, R.126, S.127, Y.130, T.131, Q.134 Chain C: Y.28, A.31, I.32, T.34, G.35, R.38, L.69 Ligands: BOG.6 13 PLIP interactions: 8 interactions with chain B, 5 interactions with chain C Hydrophobic interactions: B:Q.134, B:Q.134, C:Y.28, C:I.32 Hydrogen bonds: B:N.74, B:E.77, B:Y.117, B:R.126 Water bridges: B:Y.130, C:N.46, C:N.46 pi-Stacking: B:Y.130 Salt bridges: C:R.38 48T.15: 18 residues within 4Å: Chain A: Y.28, A.31, I.32, T.34, G.35, R.38, L.69 Chain C: R.70, N.74, E.77, H.113, Y.117, R.126, S.127, Y.130, T.131, Q.134 Ligands: BOG.11 13 PLIP interactions: 8 interactions with chain C, 5 interactions with chain A Hydrophobic interactions: C:Q.134, C:Q.134, A:Y.28, A:I.32 Hydrogen bonds: C:N.74, C:E.77, C:Y.117, C:R.126 Water bridges: C:Y.130, A:N.46, A:N.46 pi-Stacking: C:Y.130 Salt bridges: A:R.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sjogren, T. et al., Crystal Structure of Microsomal Prostaglandin E2 Synthase Provides Insight Into Diversity in the Mapeg Superfamily. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2013-02-06

Peptides

PROSTAGLANDIN E 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

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