SMTL ID : 3lm9.1

Crystal structure of fructokinase with ADP and Fructose bound in the active site

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

homo-dimer

Ligands

2 x FRU: beta-D-fructofuranose(Non-covalent)

FRU.1: 11 residues within 4Å: Chain A: G.62, P.63, D.106, V.107, T.130, I.135, G.136, E.153, H.156, E.179 Chain B: Y.255 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.62, A:G.62, A:E.153, A:H.156 Water bridges: A:H.151, A:E.153 FRU.5: 11 residues within 4Å: Chain A: Y.255 Chain B: G.62, P.63, D.106, V.107, T.130, I.135, G.136, E.153, H.156, E.179 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:G.62, B:G.62, B:E.153, B:H.156, A:Y.255 Water bridges: B:E.153

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

SO4.2: 3 residues within 4Å: Chain A: P.80, K.81, A.82 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.82 Salt bridges: A:K.81 SO4.6: 3 residues within 4Å: Chain B: P.80, K.81, A.82 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.82 Salt bridges: B:K.81

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.3: 12 residues within 4Å: Chain A: G.132, T.133, G.184, P.185, E.188, A.195, A.196, G.232, G.233, V.234, Q.236, Q.237 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.133, A:T.133, A:E.188, A:G.233 Water bridges: A:T.13, A:T.13, A:G.134 ADP.7: 12 residues within 4Å: Chain B: G.132, T.133, G.184, P.185, E.188, A.195, A.196, G.232, G.233, V.234, Q.236, Q.237 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.133, B:T.133, B:E.188, B:G.233 Water bridges: B:T.13, B:G.134

2 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: H.156, C.171, H.174, C.177 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.156, A:C.171, A:H.174, A:C.177 ZN.8: 4 residues within 4Å: Chain B: H.156, C.171, H.174, C.177 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.156, B:C.171, B:H.174, B:C.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nocek, B. et al., Structural studies of ROK fructokinase YdhR from Bacillus subtilis: insights into substrate binding and fructose specificity. J.Mol.Biol. (2011)

Release Date

2010-03-09

Peptides

fructokinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

fructokinase

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