SMTL ID : 5a4w.1

AtGSTF2 from Arabidopsis thaliana in complex with quercetrin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-hexamer

Ligands

8 x QCT: 2-(3,4-dihydroxyphenyl)-5,7-dihydroxy-4-oxo-4H-chromen-3-yl 6-deoxy-alpha-L-mannopyranoside(Non-covalent)

QCT.1: 14 residues within 4Å: Chain A: I.99, I.102, G.103, V.150, Y.151, R.154, L.161, T.169 Chain B: S.48, R.49, P.51, F.52, K.64, F.66 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:I.99, A:I.102, A:Y.151 Hydrogen bonds: A:R.154, A:L.161, B:S.48, B:R.49 Water bridges: A:G.103 QCT.2: 13 residues within 4Å: Chain A: Q.73, H.77, S.91, K.92, N.93, I.94, Y.97, A.98, A.101 Chain B: Q.73, Y.74, H.77, Y.97 13 PLIP interactions: 7 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:Y.97, A:Y.97 Hydrogen bonds: A:Q.73, A:K.92, B:Q.73 Salt bridges: A:H.77, B:H.77 pi-Stacking: A:H.77, A:Y.97, B:H.77, B:Y.97 Water bridges: B:Q.73, B:I.94 QCT.4: 15 residues within 4Å: Chain A: S.48, R.49, P.51, F.52, K.64, F.66 Chain B: I.99, I.102, G.103, V.106, V.150, Y.151, R.154, L.161, T.169 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:I.99, B:I.102, B:Y.151 Hydrogen bonds: B:L.161, A:S.48, A:R.49, A:K.64, A:K.64 Water bridges: B:G.103 Salt bridges: B:R.154 QCT.6: 14 residues within 4Å: Chain C: I.99, I.102, G.103, V.106, V.150, R.154, L.161, T.169 Chain D: S.48, R.49, P.51, F.52, K.64, F.66 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:I.102 Hydrogen bonds: C:R.154, C:L.161, D:S.48 Salt bridges: C:R.154 QCT.7: 10 residues within 4Å: Chain C: A.70, Q.73, Y.74, H.77, Y.97 Chain D: H.77, I.94, Y.97, A.98, A.101 9 PLIP interactions: 6 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:Y.97, D:Y.97, D:Y.97, D:A.101 pi-Stacking: D:H.77, D:Y.97, C:H.77, C:Y.97 Hydrogen bonds: C:Q.73 QCT.9: 14 residues within 4Å: Chain C: S.48, R.49, P.51, F.52, K.64, F.66 Chain D: I.99, I.102, G.103, V.106, V.150, R.154, L.161, T.169 8 PLIP interactions: 6 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:I.99, D:I.102, D:I.102 Hydrogen bonds: D:R.154, D:R.154, D:L.161, C:S.48, C:R.49 QCT.11: 13 residues within 4Å: Chain E: I.99, I.102, G.103, V.150, R.154, L.161, T.169 Chain F: S.48, R.49, P.51, F.52, K.64, F.66 9 PLIP interactions: 7 interactions with chain E, 2 interactions with chain F Hydrophobic interactions: E:I.99, E:I.102 Hydrogen bonds: E:R.154, E:R.154, E:L.161, F:S.48, F:R.49 Water bridges: E:Q.96, E:A.162 QCT.13: 14 residues within 4Å: Chain E: A.70, Q.73, Y.74, H.77, Y.97 Chain F: Q.73, H.77, S.91, K.92, N.93, I.94, Y.97, A.98, A.101 12 PLIP interactions: 7 interactions with chain F, 5 interactions with chain E Hydrophobic interactions: F:Y.97, F:Y.97 Hydrogen bonds: F:Q.73, F:K.92, E:Q.73 Salt bridges: F:H.77, E:H.77 pi-Stacking: F:H.77, F:Y.97, E:H.77, E:Y.97 Water bridges: E:I.94

6 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 6 residues within 4Å: Chain A: A.14, V.55, P.56, E.67, S.68, R.69 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.14 Hydrogen bonds: A:E.67, A:S.68, A:R.69 Water bridges: A:R.69 ACT.5: 7 residues within 4Å: Chain B: A.14, R.17, Q.54, P.56, E.67, S.68, R.69 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.17, B:V.55, B:E.67, B:S.68, B:R.69 Water bridges: B:R.69 ACT.8: 5 residues within 4Å: Chain C: A.14, P.56, E.67, S.68, R.69 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:V.55, C:S.68, C:R.69 Water bridges: C:R.17, C:E.67, C:R.69 ACT.10: 6 residues within 4Å: Chain D: A.14, R.17, P.56, E.67, S.68, R.69 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:R.17, D:E.67, D:S.68, D:R.69 Water bridges: D:E.67, D:R.69 ACT.12: 5 residues within 4Å: Chain E: A.14, P.56, E.67, S.68, R.69 7 PLIP interactions: 7 interactions with chain E Hydrogen bonds: E:V.55, E:E.67, E:E.67, E:S.68, E:R.69 Water bridges: E:R.17, E:R.69 ACT.14: 7 residues within 4Å: Chain F: A.14, Q.54, V.55, P.56, E.67, S.68, R.69 7 PLIP interactions: 7 interactions with chain F Hydrogen bonds: F:R.17, F:V.55, F:E.67, F:E.67, F:S.68, F:R.69 Water bridges: F:R.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ahmad, L. et al., Structural evidence for Arabidopsis glutathione transferase AtGSTF2 functioning as a transporter of small organic ligands. FEBS Open Bio (2017)

Release Date

2016-06-29

Peptides

GLUTATHIONE S-TRANSFERASE F2: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

GLUTATHIONE S-TRANSFERASE F2

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