SMTL ID : 3w7s.1 (1 other biounit)

Escherichia coli K12 YgjK complexed with glucose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.431, N.433, N.435, V.437, E.439, E.549 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.431, A:V.437, A:E.439, A:E.549

5 x GLC: alpha-D-glucopyranose(Non-covalent)

GLC.2: 6 residues within 4Å: Chain A: W.321, D.368, K.391, W.496, D.501 Ligands: GLC.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.321, A:D.368, A:K.391, A:K.391, A:D.501 GLC.3: 8 residues within 4Å: Chain A: L.369, G.383, N.384, W.385, N.386, R.388, W.496 Ligands: GLC.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:N.386 Water bridges: A:N.384, A:E.387, A:R.388, A:R.388, A:R.388, A:D.445, A:D.445 GLC.4: 7 residues within 4Å: Chain A: S.349, W.350, Q.351, I.352, Q.353, D.356, R.378 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Q.351, A:Q.353, A:D.356, A:D.356 Water bridges: A:S.349, A:W.350, A:Q.353 Salt bridges: A:R.378 GLC.5: 6 residues within 4Å: Chain A: D.3, Y.90, I.92, V.97, K.99, R.112 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.3, A:Y.90, A:K.99, A:E.108, A:R.112 Water bridges: A:Q.259 Salt bridges: A:K.99 GLC.6: 5 residues within 4Å: Chain A: N.304, D.338, K.341, E.342, R.345 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.304, A:R.345 Water bridges: A:E.342, A:R.345, A:R.345

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kurakata, Y. et al., Structural insights into the substrate specificity and function of Escherichia coli K12 YgjK, a glucosidase belonging to the glycoside hydrolase family 63. J.Mol.Biol. (2008)

Release Date

2013-04-03

Peptides

Uncharacterized protein YgjK: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Uncharacterized protein YgjK

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