SMTL ID : 5bvc.1

Crystal structure of Lipomyces starkeyi levoglucosan kinase bound to ADP, magnesium and levoglucosan in an alternate orientation.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

ADP.1: 16 residues within 4Å: Chain A: G.22, T.23, S.24, D.26, G.188, G.189, N.217, D.221, Y.234, D.235, K.236, D.237, G.327, G.328, E.362 Ligands: MG.3 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:G.22, A:T.23, A:S.24, A:S.24, A:M.25, A:D.26, A:D.29, A:G.189, A:D.221, A:D.237, A:D.237, A:G.328 Water bridges: A:G.22, A:N.186, A:N.186 ADP.4: 16 residues within 4Å: Chain B: G.22, T.23, S.24, D.26, G.188, G.189, N.217, D.221, Y.234, D.235, K.236, D.237, G.327, G.328, E.362 Ligands: MG.6 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:G.22, B:T.23, B:S.24, B:S.24, B:M.25, B:D.26, B:D.26, B:D.29, B:G.189, B:D.221, B:D.237, B:D.237, B:G.328 Water bridges: B:G.22, B:N.186, B:N.186

2 x 4PW: Levoglucosan(Non-covalent)

4PW.2: 9 residues within 4Å: Chain A: R.153, A.164, P.165, N.186, I.190, N.192, D.212, T.268, E.362 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.186, A:N.192, A:D.212, A:D.212 Water bridges: A:R.153, A:R.153, A:N.192, A:N.192 Salt bridges: A:R.153 4PW.5: 9 residues within 4Å: Chain B: R.153, A.164, P.165, N.186, I.190, N.192, D.212, T.268, E.362 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:N.186, B:N.192, B:D.212, B:D.212, B:E.362 Water bridges: B:R.153, B:R.153, B:N.192, B:N.192 Salt bridges: B:R.153

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: G.22, D.26 Ligands: ADP.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.26, H2O.1, H2O.2, H2O.4 MG.6: 3 residues within 4Å: Chain B: G.22, D.26 Ligands: ADP.4 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.26, H2O.13, H2O.13, H2O.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bacik, J.P. et al., Producing Glucose 6-Phosphate from Cellulosic Biomass: STRUCTURAL INSIGHTS INTO LEVOGLUCOSAN BIOCONVERSION. J.Biol.Chem. (2015)

Release Date

2015-09-16

Peptides

Levoglucosan kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Levoglucosan kinase

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