SMTL ID : 8dtc.1

Crystal Structure of Glucokinase with bound glucose from Acanthamoeba castellanii

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

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

BGC.1: 12 residues within 4Å: Chain A: A.112, G.113, T.125, N.126, N.155, D.156, G.202, L.203, G.204, E.226, H.229, E.265 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.126, A:N.155, A:N.155, A:E.226, A:E.226 Water bridges: A:T.201, A:G.202, A:G.202 Salt bridges: A:H.229 BGC.2: 6 residues within 4Å: Chain A: G.54, G.55, T.56, N.57, R.59, K.76 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.55, A:T.56, A:T.56, A:T.56, A:N.57, A:N.57, A:N.57 Salt bridges: A:R.59, A:K.76 BGC.5: 12 residues within 4Å: Chain B: A.112, G.113, T.125, N.126, N.155, D.156, G.202, L.203, G.204, E.226, H.229, E.265 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:T.125, B:N.126, B:N.155, B:N.155, B:E.226, B:E.226 Water bridges: B:D.156, B:D.156, B:T.201, B:T.201, B:G.202, B:G.202 Salt bridges: B:H.229 BGC.6: 6 residues within 4Å: Chain B: G.54, G.55, T.56, N.57, R.59, K.76 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:T.56, B:T.56, B:T.56, B:N.57, B:N.57, B:N.57 Salt bridges: B:R.59, B:K.76

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

SO4.3: 3 residues within 4Å: Chain A: R.59, Q.73, K.76 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.73 Salt bridges: A:R.59, A:K.76 SO4.7: 3 residues within 4Å: Chain B: R.59, Q.73, K.76 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.73 Water bridges: B:N.383 Salt bridges: B:R.59, B:K.76

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 5 residues within 4Å: Chain A: R.114, I.115, G.116, S.121, D.123 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.121, A:S.121 EDO.8: 5 residues within 4Å: Chain B: R.114, I.115, G.116, S.121, D.123 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.121

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

DeBouver, N.D. et al., Crystal Structure of Glucokinase with bound glucose from Acanthamoeba castellanii. to be published

Release Date

2022-08-10

Peptides

Glucokinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glucokinase