SMTL ID : 2gou.1

Structure of wild type, oxidized SYE1, an OYE homologue from S. oneidensis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x BOG: octyl beta-D-glucopyranoside(Non-covalent)

BOG.1: 3 residues within 4Å: Chain A: H.39, I.43, E.354 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.39, A:E.354 Salt bridges: A:H.39

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

SO4.2: 2 residues within 4Å: Chain A: R.336, H.337 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.336, A:R.336, A:H.337 Salt bridges: A:R.336, A:H.337

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.3: 22 residues within 4Å: Chain A: P.23, P.24, M.25, T.26, E.57, G.58, Q.100, H.181, N.184, R.233, V.272, W.274, G.300, R.301, F.321, G.322, R.323, P.324, I.326, L.349, F.350 Ligands: PE4.4 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:M.25, A:W.274, A:W.274, A:R.323, A:I.326, A:L.349, A:F.350 Hydrogen bonds: A:P.24, A:T.26, A:T.26, A:G.58, A:Q.100, A:Q.100, A:N.184, A:R.233, A:R.233, A:R.301, A:G.322, A:R.323 Water bridges: A:G.300, A:R.301, A:Y.302, A:Y.302, A:Y.302 Salt bridges: A:R.323

1 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.4: 8 residues within 4Å: Chain A: T.26, Y.68, W.102, Y.186, W.274, D.275, F.350 Ligands: FMN.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.26, A:Y.186 Water bridges: A:D.275

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.5: 6 residues within 4Å: Chain A: S.194, G.204, G.205, S.206, L.207, R.210 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.194, A:G.205, A:G.205, A:R.210, A:R.210 Water bridges: A:S.194, A:S.194

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

van den Hemel, D. et al., Ligand-induced conformational changes in the capping subdomain of a bacterial old yellow enzyme homologue and conserved sequence fingerprints provide new insights into substrate binding. J.Biol.Chem. (2006)

Release Date

2006-07-25

Peptides

oxidoreductase, FMN-binding: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

oxidoreductase, FMN-binding

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