SMTL ID : 3gr7.1

Structure of OYE from Geobacillus kaustophilus, hexagonal crystal form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

4 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 17 residues within 4Å: Chain A: S.23, P.24, M.25, C.26, A.60, Q.102, H.164, H.167, R.215, V.283, G.284, L.285, I.286, G.307, R.308 Chain C: R.336 Ligands: SO4.3 22 PLIP interactions: 21 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:M.25, A:R.308, C:R.336 Hydrogen bonds: A:S.23, A:S.23, A:P.24, A:C.26, A:A.60, A:Q.102, A:Q.102, A:H.167, A:R.215, A:R.215, A:G.284, A:L.285, A:I.286, A:G.307, A:R.308, A:R.308 Water bridges: A:I.286, A:E.309 Salt bridges: A:R.308 FMN.4: 17 residues within 4Å: Chain B: S.23, P.24, M.25, C.26, A.60, Q.102, H.164, H.167, R.215, V.283, G.284, L.285, I.286, G.307, R.308 Chain D: R.336 Ligands: SO4.6 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:M.25, B:R.308 Hydrogen bonds: B:S.23, B:S.23, B:P.24, B:C.26, B:A.60, B:Q.102, B:Q.102, B:H.167, B:R.215, B:R.215, B:L.285, B:I.286, B:G.307, B:R.308, B:R.308 Water bridges: B:G.284, B:G.284, B:E.309 Salt bridges: B:R.308 FMN.7: 17 residues within 4Å: Chain A: R.336 Chain C: S.23, P.24, M.25, C.26, A.60, Q.102, H.164, H.167, R.215, V.283, G.284, L.285, I.286, G.307, R.308 Ligands: SO4.9 21 PLIP interactions: 20 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:M.25, C:R.308, A:R.336 Hydrogen bonds: C:S.23, C:S.23, C:P.24, C:C.26, C:A.60, C:Q.102, C:Q.102, C:R.215, C:R.215, C:G.284, C:L.285, C:I.286, C:G.307, C:R.308, C:R.308 Water bridges: C:I.286, C:E.309 Salt bridges: C:R.308 FMN.10: 17 residues within 4Å: Chain B: R.336 Chain D: S.23, P.24, M.25, C.26, A.60, Q.102, H.164, H.167, R.215, V.283, G.284, L.285, I.286, G.307, R.308 Ligands: SO4.12 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:M.25, D:R.308 Hydrogen bonds: D:S.23, D:S.23, D:P.24, D:C.26, D:A.60, D:Q.102, D:Q.102, D:R.215, D:R.215, D:L.285, D:I.286, D:G.307, D:R.308, D:R.308 Water bridges: D:G.284, D:G.284, D:E.309 Salt bridges: D:R.308

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

SO4.2: 6 residues within 4Å: Chain A: Y.194, R.195, G.198, D.202, R.237, Q.241 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.195 Water bridges: A:R.195 Salt bridges: A:R.237 SO4.3: 5 residues within 4Å: Chain A: I.69, H.164, H.167, Y.169 Ligands: FMN.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.169 Salt bridges: A:H.167 SO4.5: 3 residues within 4Å: Chain B: G.198, D.202, R.237 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.195 Salt bridges: B:R.237 SO4.6: 6 residues within 4Å: Chain B: C.26, I.69, H.164, H.167, Y.169 Ligands: FMN.4 2 PLIP interactions: 2 interactions with chain B Water bridges: B:K.109 Salt bridges: B:H.167 SO4.8: 6 residues within 4Å: Chain C: Y.194, R.195, G.198, D.202, R.237, Q.241 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.195 Water bridges: C:E.199 Salt bridges: C:R.237 SO4.9: 5 residues within 4Å: Chain C: I.69, H.164, H.167, Y.169 Ligands: FMN.7 2 PLIP interactions: 2 interactions with chain C Water bridges: C:H.167 Salt bridges: C:H.167 SO4.11: 3 residues within 4Å: Chain D: G.198, D.202, R.237 2 PLIP interactions: 2 interactions with chain D Water bridges: D:R.195 Salt bridges: D:R.237 SO4.12: 6 residues within 4Å: Chain D: C.26, I.69, H.164, H.167, Y.169 Ligands: FMN.10 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:Y.169 Water bridges: D:K.109 Salt bridges: D:H.167

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schittmayer, M. et al., Old Yellow Enzyme-Catalyzed Dehydrogenation of Saturated Ketones. ADV.SYNTH.CATAL. (2011)

Release Date

2010-03-31

Peptides

NADPH dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

NADPH dehydrogenase

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