SMTL ID : 5o0i.1

ADP-dependent glucokinase from Pyrococcus horikoshii

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: D.146, G.147, H.163, R.165 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.146, A:G.147, A:R.165 Salt bridges: A:H.163 SO4.2: 9 residues within 4Å: Chain A: Y.344, A.369, A.370, A.373, K.427, V.428, V.429, K.430, I.438 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.429, A:K.430 SO4.3: 3 residues within 4Å: Chain A: K.85, A.86, N.196 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.86, A:A.86, A:N.196 Salt bridges: A:K.85 SO4.4: 7 residues within 4Å: Chain A: N.30, N.32, G.112, Q.113, H.176, G.233, H.235 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.30, A:Q.113 Water bridges: A:G.112, A:G.112, A:H.176 Salt bridges: A:H.235 SO4.5: 3 residues within 4Å: Chain A: G.355, E.356, H.357 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.356, A:H.357 Salt bridges: A:H.357 SO4.6: 10 residues within 4Å: Chain A: R.97, Q.135, E.172, D.173, C.174, I.175, A.202, D.203, D.204, Y.205 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.202, A:D.204 Water bridges: A:I.175 Salt bridges: A:R.97 SO4.7: 3 residues within 4Å: Chain A: R.97, E.98, R.101 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.101, A:R.101, A:D.173 Salt bridges: A:R.101

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

EDO.8: 1 residues within 4Å: Chain A: R.194 No protein-ligand interaction detected (PLIP) EDO.9: 3 residues within 4Å: Chain A: R.262, Y.287, K.337 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.262, A:R.262

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.10: 5 residues within 4Å: Chain A: N.292, E.293, H.342, T.343, Y.344 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.292, A:T.343, A:Y.344

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grudnik, P. et al., Structural basis for ADP-dependent glucokinase inhibition by 8-bromo-substituted adenosine nucleotide. J. Biol. Chem. (2018)

Release Date

2018-05-30

Peptides

ADP-dependent glucokinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ADP-dependent glucokinase