SMTL ID : 1h6c.1

Oxidized Precursor Form of Glucose-Fructose Oxidoreductase from Zymomonas mobilis complexed with succinate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

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

NDP.1: 33 residues within 4Å: Chain A: G.90, L.91, G.92, K.93, Y.94, S.116, G.117, K.121, Y.139, I.157, L.158, P.159, N.160, L.162, H.163, E.180, K.181, P.182, G.207, R.209, A.248, W.251, R.252, Y.269, Y.348 Chain C: V.62, P.63, T.65, P.66, A.67, G.68, R.69 Ligands: SIN.2 27 PLIP interactions: 24 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:Y.94 Hydrogen bonds: A:L.91, A:K.93, A:Y.94, A:G.117, A:K.121, A:Y.139, A:Y.139, A:L.158, A:N.160, A:E.180, A:K.181, A:R.209, A:Y.348, C:P.63, C:A.67, C:R.69 Water bridges: A:G.92, A:A.95, A:K.121, A:Y.155, A:R.209, A:P.247, A:R.252 Salt bridges: A:K.121, A:R.252 pi-Stacking: A:Y.94 NDP.4: 35 residues within 4Å: Chain B: G.90, L.91, G.92, K.93, Y.94, S.116, G.117, N.118, K.121, Y.139, I.157, L.158, P.159, N.160, L.162, H.163, E.180, K.181, P.182, G.207, R.209, P.247, A.248, W.251, R.252, Y.269, Y.348 Chain D: V.62, P.63, T.65, P.66, A.67, G.68, R.69 Ligands: SIN.5 24 PLIP interactions: 20 interactions with chain B, 4 interactions with chain D Hydrophobic interactions: B:Y.94 Hydrogen bonds: B:L.91, B:K.93, B:Y.94, B:G.117, B:N.118, B:K.121, B:Y.139, B:L.158, B:N.160, B:E.180, B:R.209, B:Y.269, D:P.63, D:A.67, D:R.69, D:R.69 Water bridges: B:L.91, B:K.121, B:R.209, B:R.252 Salt bridges: B:K.121, B:R.252 pi-Stacking: B:Y.94 NDP.7: 33 residues within 4Å: Chain A: V.62, P.63, T.65, P.66, A.67, G.68, R.69 Chain C: G.90, L.91, G.92, K.93, Y.94, S.116, G.117, K.121, Y.139, I.157, L.158, P.159, N.160, L.162, H.163, E.180, K.181, P.182, G.207, R.209, A.248, W.251, R.252, Y.269, Y.348 Ligands: SIN.8 27 PLIP interactions: 24 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:Y.94 Hydrogen bonds: C:L.91, C:K.93, C:Y.94, C:G.117, C:K.121, C:Y.139, C:Y.139, C:L.158, C:N.160, C:E.180, C:K.181, C:R.209, C:Y.348, A:P.63, A:A.67, A:R.69 Water bridges: C:G.92, C:A.95, C:K.121, C:Y.155, C:R.209, C:P.247, C:R.252 Salt bridges: C:K.121, C:R.252 pi-Stacking: C:Y.94 NDP.10: 35 residues within 4Å: Chain B: V.62, P.63, T.65, P.66, A.67, G.68, R.69 Chain D: G.90, L.91, G.92, K.93, Y.94, S.116, G.117, N.118, K.121, Y.139, I.157, L.158, P.159, N.160, L.162, H.163, E.180, K.181, P.182, G.207, R.209, P.247, A.248, W.251, R.252, Y.269, Y.348 Ligands: SIN.11 24 PLIP interactions: 20 interactions with chain D, 4 interactions with chain B Hydrophobic interactions: D:Y.94 Hydrogen bonds: D:L.91, D:K.93, D:Y.94, D:G.117, D:N.118, D:K.121, D:Y.139, D:L.158, D:N.160, D:E.180, D:R.209, D:Y.269, B:P.63, B:A.67, B:R.69, B:R.69 Water bridges: D:L.91, D:K.121, D:R.209, D:R.252 Salt bridges: D:K.121, D:R.252 pi-Stacking: D:Y.94

4 x SIN: SUCCINIC ACID(Non-covalent)

SIN.2: 8 residues within 4Å: Chain A: K.181, R.209, I.266, Y.269, Y.348 Chain C: F.369 Ligands: NDP.1, GOL.3 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:Y.269, C:F.369 Hydrogen bonds: A:Y.269, A:Y.269 Water bridges: A:D.240, A:R.252, A:R.252 Salt bridges: A:K.181 SIN.5: 8 residues within 4Å: Chain B: K.181, D.265, I.266, Y.269, Y.348 Chain D: F.369 Ligands: NDP.4, GOL.6 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:I.266, B:Y.269, D:F.369 Hydrogen bonds: B:R.252, B:Y.269 Water bridges: B:K.181, B:K.181, B:D.240 Salt bridges: B:K.181 SIN.8: 8 residues within 4Å: Chain A: F.369 Chain C: K.181, R.209, I.266, Y.269, Y.348 Ligands: NDP.7, GOL.9 8 PLIP interactions: 7 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:Y.269, A:F.369 Hydrogen bonds: C:Y.269, C:Y.269 Water bridges: C:D.240, C:R.252, C:R.252 Salt bridges: C:K.181 SIN.11: 8 residues within 4Å: Chain B: F.369 Chain D: K.181, D.265, I.266, Y.269, Y.348 Ligands: NDP.10, GOL.12 9 PLIP interactions: 8 interactions with chain D, 1 interactions with chain B Hydrophobic interactions: D:I.266, D:Y.269, B:F.369 Hydrogen bonds: D:R.252, D:Y.269 Water bridges: D:K.181, D:K.181, D:D.240 Salt bridges: D:K.181

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: D.240, Y.348 Chain C: I.75, F.369, I.370 Ligands: SIN.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.240 Water bridges: A:Y.348 GOL.6: 5 residues within 4Å: Chain B: K.93, D.240 Chain D: I.75, F.369 Ligands: SIN.5 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.93, B:K.93, B:D.240, B:Y.348 GOL.9: 6 residues within 4Å: Chain A: I.75, F.369, I.370 Chain C: D.240, Y.348 Ligands: SIN.8 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.240 Water bridges: C:Y.348 GOL.12: 5 residues within 4Å: Chain B: I.75, F.369 Chain D: K.93, D.240 Ligands: SIN.11 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:K.93, D:K.93, D:D.240, D:Y.348

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nurizzo, D. et al., Crystal Structures of the Precursor Form of Glucose-Fructose Oxidoreductase from Zymomonas Mobilis and its Complexes with Bound Ligands. Biochemistry (2001)

Release Date

2001-11-28

Peptides

PRECURSOR FORM OF GLUCOSE-FRUCTOSE OXIDOREDUCTASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

PRECURSOR FORM OF GLUCOSE-FRUCTOSE OXIDOREDUCTASE

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