SMTL ID : 7bql.1

The crystal structure of PdxI complex with the Alder-ene adduct

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

2 x F5F: 3-[(1R,2S,4R,6S)-2-ethenyl-4,6-dimethyl-cyclohexyl]-4-oxidanyl-1H-pyridin-2-one(Non-covalent)

F5F.1: 12 residues within 4Å: Chain A: H.161, F.204, Y.205, L.229, T.232, D.233, F.236, H.336, K.337, Q.412, V.413 Chain B: M.76 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.229, A:F.236, A:F.236, A:Q.412, A:V.413 Hydrogen bonds: A:H.161, A:K.337, A:Q.412 Water bridges: A:Y.205, A:K.337 F5F.3: 14 residues within 4Å: Chain A: M.76 Chain B: H.161, F.204, Y.205, L.229, T.232, D.233, F.236, I.242, H.336, K.337, Q.412, V.413, V.416 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:L.229, B:F.236, B:I.242, B:Q.412, B:V.413 Hydrogen bonds: B:H.161, B:Y.205, B:K.337, B:Q.412

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 4 residues within 4Å: Chain A: N.92, D.95, A.96, K.111 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.92 PEG.4: 3 residues within 4Å: Chain B: N.92, A.96, K.111 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ohashi, M. et al., An enzymatic Alder-ene reaction. Nature (2020)

Release Date

2020-10-14

Peptides

Methyltransf_2 domain-containing protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Methyltransf_2 domain-containing protein

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