SMTL ID : 8b25.1

Dihydroprecondylocarpine acetate synthase 2 from Tabernanthe iboga - stemmadenine acetate bound structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.24 Å

Oligo State

homo-dimer

Ligands

2 x OSO: stemmadenine acetate(Non-covalent)

OSO.1: 12 residues within 4Å: Chain A: T.54, S.58, Y.63, M.74, Y.101, N.117, V.122, I.124, Y.126, A.304, A.305 Chain B: S.295 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.54, A:Y.63, A:Y.63, A:Y.101, A:N.117, A:I.124, A:Y.126 Water bridges: A:G.125 OSO.8: 13 residues within 4Å: Chain A: I.291 Chain B: T.54, S.58, Y.63, M.74, Y.101, N.117, V.122, I.124, Y.126, A.281, A.304, A.305 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:T.54, B:Y.63, B:Y.63, B:Y.101, B:I.124, B:Y.126, B:A.305, A:I.291 Hydrogen bonds: B:T.54 Water bridges: B:G.125

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

EDO.2: 2 residues within 4Å: Chain A: Y.109 Ligands: EDO.3 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.109 Water bridges: B:R.271 EDO.3: 6 residues within 4Å: Chain A: Y.109, N.110 Chain B: R.271, S.272, H.273 Ligands: EDO.2 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.109, B:R.271 EDO.4: 5 residues within 4Å: Chain A: R.22, E.64, F.65, L.66, S.67 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.22, A:F.65, A:L.66 Water bridges: A:S.67 EDO.5: 6 residues within 4Å: Chain A: G.193, L.194, S.216, T.217, T.218, K.221 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.194, A:T.217, A:K.221, A:K.221 EDO.9: 7 residues within 4Å: Chain B: G.193, L.194, S.216, T.217, T.218, K.221, L.257 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.194, B:T.217, B:T.217, B:T.218

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

SO4.6: 6 residues within 4Å: Chain A: C.52, H.53, A.169, G.196, L.197, R.350 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:H.53, A:G.196, A:L.197 Water bridges: A:T.54, A:G.198, A:R.350 Salt bridges: A:R.350 SO4.10: 6 residues within 4Å: Chain B: C.52, H.53, A.169, G.196, L.197, R.350 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:H.53, B:G.196, B:L.197 Water bridges: B:T.54, B:R.350, B:R.350 Salt bridges: B:R.350

2 x ZN: ZINC ION(Non-covalent)

ZN.7: 4 residues within 4Å: Chain A: C.105, C.108, C.111, C.119 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.105, A:C.108, A:C.111, A:C.119 ZN.11: 5 residues within 4Å: Chain B: C.105, G.106, C.108, C.111, C.119 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.105, B:C.108, B:C.111, B:C.119

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Langley, C. et al., Expansion of the Catalytic Repertoire of Alcohol Dehydrogenases in Plant Metabolism. Angew.Chem.Int.Ed.Engl. (2022)

Release Date

2022-10-19

Peptides

Dihydroprecondylocarpine acetate synthase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dihydroprecondylocarpine acetate synthase 2

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