SMTL ID : 1rye.1

Crystal Structure of the Shifted Form of the Glucose-Fructose Oxidoreductase from Zymomonas mobilis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

4 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.1: 34 residues within 4Å: Chain A: G.44, L.45, G.46, K.47, Y.48, S.70, G.71, K.75, Y.93, I.111, L.112, P.113, N.114, L.116, H.117, E.134, K.135, P.136, G.161, R.163, A.202, W.205, R.206, L.211, D.219, Y.223, Y.302 Chain D: V.16, P.17, T.19, P.20, A.21, G.22, R.23 26 PLIP interactions: 23 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:Y.48, A:Y.48 Hydrogen bonds: A:L.45, A:K.47, A:Y.48, A:G.71, A:K.75, A:Y.93, A:Y.93, A:L.112, A:E.134, A:K.135, A:R.163, A:R.206, A:D.219, D:T.19, D:A.21, D:R.23 Water bridges: A:G.46, A:Y.48, A:A.49, A:R.163, A:P.201, A:A.202 Salt bridges: A:K.75, A:R.206 NDP.4: 23 residues within 4Å: Chain B: G.44, L.45, G.46, K.47, Y.48, S.70, G.71, K.75, Y.93, I.111, L.112, P.113, N.114, L.116, H.117, E.134, K.135, P.136, R.163, W.205, R.206, Y.223, Y.302 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:Y.48 Hydrogen bonds: B:L.45, B:K.47, B:Y.48, B:G.71, B:K.75, B:Y.93, B:L.112, B:N.114, B:E.134, B:K.135, B:R.163, B:Y.223, B:Y.302 Water bridges: B:R.206, B:R.206 Salt bridges: B:K.75, B:R.206 pi-Stacking: B:Y.48 NDP.6: 33 residues within 4Å: Chain B: V.16, P.17, T.19, P.20, A.21, G.22, R.23 Chain C: G.44, L.45, G.46, K.47, Y.48, S.70, G.71, K.75, Y.93, I.111, L.112, P.113, N.114, L.116, H.117, E.134, K.135, P.136, G.161, R.163, A.202, W.205, R.206, D.219, Y.223, Y.302 20 PLIP interactions: 16 interactions with chain C, 4 interactions with chain B Hydrophobic interactions: C:Y.48 Hydrogen bonds: C:L.45, C:K.47, C:Y.48, C:G.71, C:Y.93, C:L.112, C:E.134, C:K.135, C:R.163, C:R.206, C:D.219, C:D.219, B:P.17, B:A.21, B:A.21, B:R.23 Salt bridges: C:K.75, C:R.206 pi-Stacking: C:Y.48 NDP.7: 25 residues within 4Å: Chain D: G.44, L.45, G.46, K.47, Y.48, S.70, G.71, K.75, Y.93, I.111, L.112, P.113, N.114, H.117, E.134, K.135, P.136, G.161, R.163, W.205, R.206, D.219, Y.223, Y.302 Ligands: GOL.8 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:Y.48 Hydrogen bonds: D:L.45, D:K.47, D:Y.48, D:G.71, D:Y.93, D:L.112, D:E.134, D:R.163, D:D.219, D:Y.223 Water bridges: D:G.46, D:A.49, D:R.163, D:R.163, D:R.163 Salt bridges: D:K.75, D:R.206, D:R.206 pi-Stacking: D:Y.48

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.2: 4 residues within 4Å: Chain A: S.278 Chain B: K.184, G.186, D.290 3 PLIP interactions: 3 interactions with chain A Water bridges: A:D.249, A:D.249, A:R.251

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: S.245, F.252, V.255, E.256 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.252 GOL.5: 3 residues within 4Å: Chain A: G.372 Chain B: R.240, P.374 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.240, A:G.372 GOL.8: 8 residues within 4Å: Chain D: K.135, R.163, R.206, D.219, I.220, Y.223, Y.302 Ligands: NDP.7 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:R.163, D:R.206, D:R.206, D:D.219, D:Y.302, D:Y.302

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of the Shifted Form of the Glucose-Fructose Oxidoreductase from Zymomonas mobilis. To be Published

Release Date

2005-02-15

Peptides

glucose-fructose oxidoreductase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

glucose-fructose oxidoreductase

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