SMTL ID : 3cx4.1

Crystal Structure of E.coli GS mutant E377A in complex with ADP and oligosaccharides

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.29 Å

Oligo State

monomer

Ligands

1 x GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC.1: 18 residues within 4Å: Chain A: E.9, T.16, G.17, G.18, L.19, Y.95, H.96, L.100, D.137, W.138, H.139, H.161, N.162, Y.165, R.300, T.302 Ligands: ADP.7, ETE.16 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.17, A:L.19, A:D.137, A:D.137, A:H.139 Water bridges: A:N.162, A:N.162

1 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.2: 8 residues within 4Å: Chain A: Y.103, T.104, M.168, F.169, Y.170, H.173, Q.194 Ligands: ETE.15 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:M.168, A:Y.170, A:Q.194, A:Q.194

1 x GLC- GLC- GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC-GLC-GLC.3: 9 residues within 4Å: Chain A: R.38, Q.55, V.56, V.57, F.71, D.125, F.127, W.128 Ligands: ETE.13 No protein-ligand interaction detected (PLIP)

1 x BGC- GLC- GLC- GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose

BGC-GLC-GLC-GLC-GLC-GLC.4: 13 residues within 4Å: Chain A: I.186, H.187, E.190, F.191, N.192, K.199, Y.203, G.227, M.228, E.229, G.230, L.231, Q.234 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:I.186, A:K.199 Water bridges: A:G.230, A:Q.234, A:R.237

2 x NA: SODIUM ION(Non-functional Binders)

NA.5: 4 residues within 4Å: Chain A: S.299, R.300, K.305 Ligands: ADP.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.300, A:R.300 NA.6: 5 residues within 4Å: Chain A: T.209, A.210, V.211, V.244, Y.469 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.159, A:T.209, A:V.244, A:Y.469

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.7: 22 residues within 4Å: Chain A: K.15, G.17, G.18, D.21, V.298, S.299, R.300, K.305, L.327, G.328, G.354, Y.355, H.356, E.357, S.360, G.380, L.381, T.382, Y.385 Ligands: GLC-GLC-GLC.1, NA.5, ETE.10 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:K.15, A:G.18, A:D.21, A:A.329, A:G.354, A:H.356, A:S.360, A:G.380, A:L.381, A:T.382, A:Y.385 Water bridges: A:N.162, A:T.382, A:T.382, A:Q.383 Salt bridges: A:R.300, A:K.305, A:K.305 pi-Stacking: A:Y.355

1 x 250: (2R)-2-hydroxy-3-[4-(2-hydroxyethyl)piperazin-1-yl]propane-1-sulfonic acid(Non-covalent)

250.8: 8 residues within 4Å: Chain A: A.164, Q.166, Y.226, S.303, Q.304, R.375, F.376 Ligands: ETE.16 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.226 Water bridges: A:Q.166

12 x ETE: 2-{2-[2-2-(METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-covalent)(Non-functional Binders)

ETE.9: 6 residues within 4Å: Chain A: D.290, K.291, W.442, P.445, W.448, R.449 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.291 ETE.10: 15 residues within 4Å: Chain A: G.18, L.19, V.22, H.161, V.211, N.246, Q.304, K.305, V.372, S.374, A.377, P.378, C.379, G.380 Ligands: ADP.7 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.161, A:Q.304, A:K.305, A:S.374, A:C.379, A:G.380 ETE.11: 9 residues within 4Å: Chain A: R.397, A.402, D.403, V.405, S.406, D.407, N.412, V.422, M.458 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.407, A:N.412 ETE.12: 5 residues within 4Å: Chain A: G.416, F.450, Q.454, A.457, M.458 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.454, A:A.457 Water bridges: A:R.267, A:D.459 ETE.13: 6 residues within 4Å: Chain A: F.127 Ligands: GLC-GLC-GLC-GLC-GLC.3, GLC-GLC-GLC-GLC-GLC.3, GLC-GLC-GLC-GLC-GLC.3, GLC-GLC-GLC-GLC-GLC.3, GLC-GLC-GLC-GLC-GLC.3 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.127 ETE.14: 2 residues within 4Å: Chain A: P.126, F.127 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.126 ETE.15: 7 residues within 4Å: Chain A: A.164, Y.165, Q.166, G.167, M.168 Ligands: GLC-GLC.2, ETE.16 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.166, A:Q.166, A:G.167, A:M.168, A:M.168 ETE.16: 8 residues within 4Å: Chain A: A.164, Y.165, T.302, S.303, Q.304 Ligands: GLC-GLC-GLC.1, 250.8, ETE.15 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.302 ETE.17: 8 residues within 4Å: Chain A: F.11, K.15, D.21, D.249, I.252, W.253, E.357, H.361 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.249, A:E.357 ETE.18: 2 residues within 4Å: Chain A: L.410, R.444 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.410 Hydrogen bonds: A:R.444 ETE.19: 1 residues within 4Å: Ligands: ETE.20 No protein-ligand interaction detected (PLIP) ETE.20: 4 residues within 4Å: Chain A: R.48, R.49, T.52 Ligands: ETE.19 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sheng, F. et al., Oligosaccharide binding in Escherichia coli glycogen synthase. Biochemistry (2009)

Release Date

2009-04-28

Peptides

Glycogen synthase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glycogen synthase

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