SMTL ID : 9f3i.1 (1 other biounit)

Crystal structure of Kluyveromyces lactis glucokinase in complex with glucose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-dimer

Ligands

2 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.1: 16 residues within 4Å: Chain A: S.152, Y.153, P.154, T.169, K.170, N.205, D.206, T.207, I.233, G.237, T.238, N.239, N.271, E.273, H.304, E.307 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:T.169, A:K.170, A:N.205, A:N.205, A:D.206, A:T.238, A:N.239, A:E.273, A:E.273, A:H.304, A:E.307 Salt bridges: A:K.170, A:H.304 BGC.5: 16 residues within 4Å: Chain B: S.152, Y.153, P.154, T.169, K.170, N.205, D.206, T.207, I.233, G.237, T.238, N.239, N.271, E.273, H.304, E.307 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:S.152, B:S.152, B:T.169, B:K.170, B:N.205, B:N.205, B:T.238, B:N.239, B:E.273, B:H.304, B:E.307 Water bridges: B:G.237, B:E.273 Salt bridges: B:K.170, B:H.304

6 x MLI: MALONATE ION(Non-functional Binders)

MLI.2: 8 residues within 4Å: Chain A: G.78, G.79, T.80, N.81, R.83, G.235, T.236, G.237 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.78, A:G.79, A:T.80, A:N.81, A:N.81, A:T.236 Salt bridges: A:R.83 MLI.3: 4 residues within 4Å: Chain A: L.126, H.129, Q.130, T.133 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Q.130 Hydrogen bonds: A:Q.130, A:T.133 Salt bridges: A:H.129 MLI.4: 7 residues within 4Å: Chain A: R.395, S.440, M.441, H.444 Chain B: Y.419, H.420, R.457 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Salt bridges: A:R.395, A:R.395, A:H.444, B:H.420 Hydrogen bonds: B:R.457 Water bridges: B:H.420 MLI.6: 7 residues within 4Å: Chain A: H.420, D.458 Chain B: R.395, F.399, S.440, M.441, H.444 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.440, B:S.440 Salt bridges: B:R.395, B:R.395, B:H.444, A:H.420 MLI.7: 9 residues within 4Å: Chain B: G.78, G.79, T.80, N.81, R.83, G.235, T.236, G.237, G.429 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:G.79, B:N.81, B:N.81, B:N.81, B:T.236, B:T.236 Water bridges: B:G.237 Salt bridges: B:R.83 MLI.8: 5 residues within 4Å: Chain B: E.244, K.245, N.248, K.411, T.412 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.248 Salt bridges: B:K.245, B:K.411

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Weisse, R.H. et al., Structural basis of hexose specificity and catalytic properties of Kluyveromyces lactis glucokinase KlGlk1. To Be Published

Release Date

2025-05-14

Peptides

Glucokinase-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glucokinase-1

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