SMTL ID : 4msu.2 (1 other biounit)

Human GKRP bound to AMG-6861 and Sorbitol-6-phosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x 2EU: 1,1,1,3,3,3-hexafluoro-2-{4-[4-(thiophen-2-ylsulfonyl)piperazin-1-yl]phenyl}propan-2-ol(Non-covalent)

2EU.1: 16 residues within 4Å: Chain A: V.39, P.40, E.43, K.44, S.45, G.192, M.224, R.226, D.228, H.515, K.525, W.528, R.529, A.532, M.533, R.536 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.39, A:E.43, A:A.532 Hydrogen bonds: A:R.536 Water bridges: A:Y.35 Salt bridges: A:E.43

1 x S6P: D-SORBITOL-6-PHOSPHATE(Non-covalent)

S6P.2: 15 residues within 4Å: Chain A: G.118, G.119, T.120, S.121, E.161, E.164, S.190, V.191, G.192, A.195, S.268, S.269, R.270, H.362, K.525 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:T.120, A:T.120, A:S.121, A:S.121, A:E.161, A:E.161, A:V.191, A:G.192, A:A.195, A:S.268, A:S.269, A:R.270, A:K.525 Water bridges: A:G.118, A:E.164, A:S.190, A:T.363 Salt bridges: A:K.525

12 x IOD: IODIDE ION(Non-functional Binders)

IOD.3: 4 residues within 4Å: Chain A: F.477, Y.479, F.483, I.484 Ligand excluded by PLIP IOD.4: 1 residues within 4Å: Chain A: V.612 Ligand excluded by PLIP IOD.5: 2 residues within 4Å: Chain A: R.84, G.261 Ligand excluded by PLIP IOD.6: 1 residues within 4Å: Chain A: T.309 Ligand excluded by PLIP IOD.7: 4 residues within 4Å: Chain A: D.56, A.57, K.329, L.507 Ligand excluded by PLIP IOD.8: 2 residues within 4Å: Chain A: R.160, G.162 Ligand excluded by PLIP IOD.9: 2 residues within 4Å: Chain A: Q.540, S.541 Ligand excluded by PLIP IOD.10: 3 residues within 4Å: Chain A: G.14, K.16, A.565 Ligand excluded by PLIP IOD.11: 2 residues within 4Å: Chain A: L.456, S.469 Ligand excluded by PLIP IOD.12: 3 residues within 4Å: Chain A: C.204, N.207, W.233 Ligand excluded by PLIP IOD.13: 2 residues within 4Å: Chain A: T.24, S.541 Ligand excluded by PLIP IOD.14: 1 residues within 4Å: Chain A: T.348 Ligand excluded by PLIP

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

SO4.15: 4 residues within 4Å: Chain A: K.329, S.332, T.333, E.336 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.332, A:S.332 SO4.16: 3 residues within 4Å: Chain A: K.54, A.55, D.56 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.507

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ashton, K.S. et al., Small Molecule Disruptors of the Glucokinase-Glucokinase Regulatory Protein Interaction: 1. Discovery of a Novel Tool Compound for in Vivo Proof-of-Concept. J.Med.Chem. (2014)

Release Date

2014-03-12

Peptides

Glucokinase regulatory protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Glucokinase regulatory protein

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