SMTL ID : 5i9k.1

The structure of microsomal glutathione transferase 1

Coordinates

PDB Format Compare

Method

ELECTRON CRYSTALLOGRAPHY 3.50 Å

Oligo State

homo-trimer

Ligands

3 x GSH: GLUTATHIONE(Non-covalent)

GSH.1: 9 residues within 4Å: Chain A: R.38, K.42, H.76, L.77 Chain C: L.77, E.81, Q.127, N.129, R.130 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:R.38, C:Q.127, C:N.129 Salt bridges: A:R.38, A:K.42, A:H.76 GSH.6: 9 residues within 4Å: Chain A: L.77, E.81, Q.127, N.129, R.130 Chain B: R.38, K.42, H.76, L.77 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.38, A:Q.127, A:N.129 Salt bridges: B:R.38, B:K.42, B:H.76 GSH.11: 9 residues within 4Å: Chain B: L.77, E.81, Q.127, N.129, R.130 Chain C: R.38, K.42, H.76, L.77 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:R.38, B:Q.127, B:N.129 Salt bridges: C:R.38, C:K.42, C:H.76

6 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PC1.2: 4 residues within 4Å: Chain A: I.105, V.136, V.140, M.144 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.105, A:V.136, A:V.140, A:V.140 PC1.3: 3 residues within 4Å: Chain A: Y.116, A.120, P.124 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.116, A:Y.116, A:A.120 PC1.7: 4 residues within 4Å: Chain B: I.105, V.136, V.140, M.144 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:I.105, B:V.136, B:V.140, B:V.140 PC1.8: 3 residues within 4Å: Chain B: Y.116, A.120, P.124 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Y.116, B:Y.116, B:A.120 PC1.12: 4 residues within 4Å: Chain C: I.105, V.136, V.140, M.144 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:I.105, C:V.136, C:V.140, C:V.140 PC1.13: 3 residues within 4Å: Chain C: Y.116, A.120, P.124 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:Y.116, C:Y.116, C:A.120

6 x PLM: PALMITIC ACID(Non-covalent)

PLM.4: 8 residues within 4Å: Chain A: K.26, L.30, I.115, T.118, I.119, Y.121, L.122, T.123 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:K.26, A:L.30, A:L.30, A:I.115, A:T.118, A:I.119, A:I.119, A:Y.121, A:Y.121, A:L.122 PLM.5: 11 residues within 4Å: Chain A: P.85, I.89, L.92, Y.93, L.149, L.153 Chain B: T.17, T.21, L.24, M.27, M.28 12 PLIP interactions: 7 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:I.89, A:L.92, A:L.92, A:Y.93, A:Y.93, A:L.149, A:L.153, B:L.24, B:L.24, B:L.24, B:M.27, B:M.28 PLM.9: 8 residues within 4Å: Chain B: K.26, L.30, I.115, T.118, I.119, Y.121, L.122, T.123 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:K.26, B:L.30, B:L.30, B:I.115, B:T.118, B:I.119, B:I.119, B:Y.121, B:Y.121, B:L.122 PLM.10: 11 residues within 4Å: Chain B: P.85, I.89, L.92, Y.93, L.149, L.153 Chain C: T.17, T.21, L.24, M.27, M.28 12 PLIP interactions: 5 interactions with chain C, 7 interactions with chain B Hydrophobic interactions: C:L.24, C:L.24, C:L.24, C:M.27, C:M.28, B:I.89, B:L.92, B:L.92, B:Y.93, B:Y.93, B:L.149, B:L.153 PLM.14: 8 residues within 4Å: Chain C: K.26, L.30, I.115, T.118, I.119, Y.121, L.122, T.123 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:K.26, C:L.30, C:L.30, C:I.115, C:T.118, C:I.119, C:I.119, C:Y.121, C:Y.121, C:L.122 PLM.15: 11 residues within 4Å: Chain A: T.17, T.21, L.24, M.27, M.28 Chain C: P.85, I.89, L.92, Y.93, L.149, L.153 12 PLIP interactions: 7 interactions with chain C, 5 interactions with chain A Hydrophobic interactions: C:I.89, C:L.92, C:L.92, C:Y.93, C:Y.93, C:L.149, C:L.153, A:L.24, A:L.24, A:L.24, A:M.27, A:M.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kuang, Q. et al., Dead-end complex, lipid interactions and catalytic mechanism of microsomal glutathione transferase 1, an electron crystallography and mutagenesis investigation. Sci Rep (2017)

Release Date

2017-07-12

Peptides

Microsomal glutathione S-transferase 1: 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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Microsomal glutathione S-transferase 1

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