SMTL ID : 6i71.1

Structure of Fragaria ananassa O-methyltransferase in complex with S-adenosylhomocysteine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 18 residues within 4Å: Chain A: F.160, F.173, M.177, S.181, G.205, G.207, F.227, D.228, L.229, V.232, D.248, M.249, F.250, K.262, W.263, I.264, D.267, W.268 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.181, A:G.205, A:G.207, A:L.229, A:D.248, A:M.249 Water bridges: A:M.177, A:K.262, A:D.267 Salt bridges: A:K.262 pi-Stacking: A:F.160 SAH.7: 17 residues within 4Å: Chain B: F.160, F.173, M.177, S.181, G.205, G.207, D.228, L.229, V.232, D.248, M.249, F.250, K.262, W.263, I.264, D.267, W.268 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:S.181, B:G.207, B:L.229, B:D.248, B:M.249, B:K.262 Water bridges: B:M.177, B:K.262, B:D.267 Salt bridges: B:K.262 pi-Stacking: B:F.160

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 6 residues within 4Å: Chain A: K.34, E.38, D.130, K.131, R.168 Chain B: Y.138 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.34, A:E.38, A:E.38, A:D.130, A:K.131 EDO.3: 6 residues within 4Å: Chain A: M.127, L.133, F.173, M.177, M.317, H.320 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.321 EDO.4: 5 residues within 4Å: Chain A: F.19, Q.22 Chain B: L.29, Y.84 Ligands: EDO.10 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Q.22, A:Y.84 EDO.8: 6 residues within 4Å: Chain A: Y.138 Chain B: K.34, E.38, D.130, K.131, R.168 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.34, B:E.38, B:E.38, B:D.130, B:K.131 EDO.9: 7 residues within 4Å: Chain B: M.127, L.133, F.173, M.177, I.316, M.317, H.320 No protein-ligand interaction detected (PLIP) EDO.10: 4 residues within 4Å: Chain A: L.29, Y.84 Chain B: Q.22 Ligands: EDO.4 2 PLIP interactions: 2 interactions with chain B Water bridges: B:Q.22, B:Y.84

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

SO4.5: 2 residues within 4Å: Chain A: P.240, G.241 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.241 Water bridges: A:V.242, A:Q.243 SO4.6: 1 residues within 4Å: Chain A: K.175 4 PLIP interactions: 4 interactions with chain A Water bridges: A:K.175, A:K.175, A:D.179 Salt bridges: A:K.175

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Heldner, A. et al., Structural insights into enzymatic formation of the strawberry flavor compound 2,5-dimethyl-4-methoxy-3(2H)-furanone. To Be Published

Release Date

2019-11-27

Peptides

O-methyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

O-methyltransferase

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