SMTL ID : 8dqo.1

Crystal structure of Arabidopsis thaliana COSY

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain A: R.211, L.214 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:R.211, A:L.214, H2O.8 CA.11: 2 residues within 4Å: Chain B: R.211, L.214 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:R.211, B:L.214, H2O.13

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

EDO.2: 7 residues within 4Å: Chain A: L.171, N.174, A.175, E.178, I.186, S.187, I.188 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.187, A:I.188, A:I.188 EDO.3: 3 residues within 4Å: Chain A: K.246, N.256, F.257 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.256, A:F.257 EDO.4: 4 residues within 4Å: Chain A: L.216, D.217, K.218, D.357 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.218, A:K.218 EDO.5: 5 residues within 4Å: Chain A: F.260, E.261, Y.287, I.332, K.336 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.261, A:E.261 Water bridges: A:T.258 EDO.6: 5 residues within 4Å: Chain A: D.33, N.35, L.36, P.310, L.397 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.35 Water bridges: A:L.397 EDO.7: 6 residues within 4Å: Chain A: D.239, L.242, D.243, K.246, T.259, Y.408 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.243, A:K.246, A:R.372 Water bridges: A:T.259, A:T.259 EDO.8: 7 residues within 4Å: Chain A: K.271, T.366, E.401, P.402, C.403, V.426, N.427 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.271, A:N.427 EDO.9: 5 residues within 4Å: Chain A: L.197, M.295, P.297, L.299, R.345 No protein-ligand interaction detected (PLIP) EDO.10: 7 residues within 4Å: Chain A: H.72, Y.74, P.75, P.190, V.191, W.192, W.304 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.74, A:W.304 EDO.12: 7 residues within 4Å: Chain A: T.7 Chain B: D.239, L.242, D.243, K.246, T.259, R.372 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.243, B:T.259, B:R.372 Water bridges: A:E.5 EDO.13: 4 residues within 4Å: Chain A: K.218, D.219, D.221 Chain B: K.185 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.219, B:K.185

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, C.Y. et al., Emergence of a proton exchange-based isomerization and lactonization mechanism in the plant coumarin synthase COSY. Nat Commun (2023)

Release Date

2023-01-11

Peptides

Coumarin Synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Coumarin Synthase

Related Entries With Identical Sequence