SMTL ID : 2cda.1

Sulfolobus solfataricus Glucose Dehydrogenase 1 in complex with NADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

homo-tetramer

Ligands

4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 23 residues within 4Å: Chain A: D.154, V.187, G.188, T.189, G.190, P.191, I.192, N.211, R.212, R.213, A.253, T.254, G.255, A.256, I.260, F.277, G.278, F.279, L.305, V.306, N.307, K.354 Chain C: V.296 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:I.192, A:F.277, A:F.277, A:F.279 Hydrogen bonds: A:T.189, A:T.189, A:I.192, A:N.211, A:R.212, A:T.254, A:F.277, A:F.279, A:N.307 Water bridges: A:G.40, A:G.193, A:Y.237 Salt bridges: A:R.213, A:K.354 NAP.4: 25 residues within 4Å: Chain B: D.154, V.187, G.188, T.189, G.190, P.191, I.192, A.210, N.211, R.212, R.213, A.253, T.254, G.255, A.256, I.260, F.277, G.278, F.279, L.305, V.306, N.307, K.354, H.356 Chain D: V.296 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:F.277, B:F.279 Hydrogen bonds: B:T.189, B:T.189, B:I.192, B:N.211, B:T.254, B:F.277, B:F.279, B:N.307 Water bridges: B:G.40, B:R.212, B:R.212 Salt bridges: B:R.213, B:K.354, B:H.356 NAP.7: 23 residues within 4Å: Chain A: V.296 Chain C: D.154, V.187, G.188, T.189, G.190, P.191, I.192, N.211, R.212, R.213, A.253, T.254, G.255, A.256, I.260, F.277, G.278, F.279, L.305, V.306, N.307, K.354 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:I.192, C:F.277, C:F.277, C:F.279 Hydrogen bonds: C:T.189, C:T.189, C:I.192, C:N.211, C:R.212, C:T.254, C:F.277, C:F.279, C:N.307 Water bridges: C:G.40, C:G.193, C:Y.237 Salt bridges: C:R.213, C:K.354 NAP.10: 25 residues within 4Å: Chain B: V.296 Chain D: D.154, V.187, G.188, T.189, G.190, P.191, I.192, A.210, N.211, R.212, R.213, A.253, T.254, G.255, A.256, I.260, F.277, G.278, F.279, L.305, V.306, N.307, K.354, H.356 16 PLIP interactions: 16 interactions with chain D Hydrophobic interactions: D:F.277, D:F.279 Hydrogen bonds: D:T.189, D:T.189, D:I.192, D:N.211, D:T.254, D:F.277, D:F.279, D:N.307 Water bridges: D:G.40, D:R.212, D:R.212 Salt bridges: D:R.213, D:K.354, D:H.356

8 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.39, H.66, E.67, Q.150 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.39, A:H.66, A:E.67, H2O.3 ZN.3: 6 residues within 4Å: Chain A: C.93, C.96, C.99, C.107, E.108, T.109 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.93, A:C.96, A:C.99, A:C.107 ZN.5: 4 residues within 4Å: Chain B: C.39, H.66, E.67, Q.150 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.39, B:H.66, B:E.67, H2O.6 ZN.6: 5 residues within 4Å: Chain B: C.93, C.96, C.99, C.107, T.109 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.93, B:C.96, B:C.99, B:C.107 ZN.8: 4 residues within 4Å: Chain C: C.39, H.66, E.67, Q.150 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:C.39, C:H.66, C:E.67, H2O.9 ZN.9: 6 residues within 4Å: Chain C: C.93, C.96, C.99, C.107, E.108, T.109 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.93, C:C.96, C:C.99, C:C.107 ZN.11: 4 residues within 4Å: Chain D: C.39, H.66, E.67, Q.150 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:C.39, D:H.66, D:E.67, H2O.12 ZN.12: 5 residues within 4Å: Chain D: C.93, C.96, C.99, C.107, T.109 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.93, D:C.96, D:C.99, D:C.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Milburn, C.C. et al., The Structural Basis of Substrate Promiscuity in Glucose Dehydrogenase from the Hyperthermophilic Archaeon Sulfolobus Solfataricus. J.Biol.Chem. (2006)

Release Date

2006-03-22

Peptides

GLUCOSE DEHYDROGENASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

GLUCOSE DEHYDROGENASE

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