SMTL ID : 3rt1.1

Maltodextarn bound activated state form of yeast glycogen synthase isoform 2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-tetramer

Ligands

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

GLC-GLC-GLC-GLC-GLC-GLC-GLC-GLC.1: 17 residues within 4Å: Chain A: D.228, N.231, K.344, D.349, M.350, Y.527, N.549, E.558, D.575, R.576, R.577, F.578, K.579, P.581, E.583, S.584, V.585 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.549, A:E.558, A:D.575

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

GLC-GLC-GLC.2: 5 residues within 4Å: Chain A: E.353, R.357, Y.360, Q.481, V.482 No protein-ligand interaction detected (PLIP)

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

GLC-GLC-GLC-GLC.3: 10 residues within 4Å: Chain C: E.137, W.138, D.141, Y.165, A.168, W.169, G.172, E.173, H.176, R.202 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.173

2 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(Non-functional Binders)(Non-covalent)

GLC-GLC-GLC-GLC-GLC.4: 11 residues within 4Å: Chain D: G.457, L.459, P.461, I.462, V.463, H.465, N.466, M.467, D.470, R.480, F.485 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:G.457 GLC-GLC-GLC-GLC-GLC.5: 5 residues within 4Å: Chain D: E.353, R.357, Y.360, Q.481, V.482 No protein-ligand interaction detected (PLIP)

5 x G6P: 6-O-phosphono-alpha-D-glucopyranose(Non-covalent)

G6P.6: 11 residues within 4Å: Chain A: Q.303, N.304, H.306, A.307, K.310, H.520, R.600, R.603, R.607 Chain B: H.300, E.301 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.303, B:E.301 Salt bridges: A:H.306, A:K.310, A:H.520, A:R.600, A:R.603, A:R.607, A:R.607, B:H.300 G6P.8: 11 residues within 4Å: Chain A: H.300, E.301 Chain B: Q.303, N.304, H.306, A.307, K.310, H.520, R.600, R.603, R.607 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Q.303, A:E.301 Salt bridges: B:H.306, B:K.310, B:H.520, B:R.600, B:R.603, B:R.607, B:R.607, A:H.300 G6P.9: 10 residues within 4Å: Chain B: E.36, G.43, I.44, E.189, H.213, R.219, R.340, E.342, K.346, Y.533 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:E.36, B:G.43, B:I.44, B:H.213, B:Y.533, B:Y.533 Salt bridges: B:R.219, B:R.340, B:R.340, B:K.346 G6P.12: 11 residues within 4Å: Chain C: Q.303, N.304, H.306, A.307, K.310, H.520, R.600, R.603, I.604, R.607 Chain D: H.300 11 PLIP interactions: 10 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:Q.303, C:N.304 Salt bridges: C:H.306, C:H.306, C:K.310, C:H.520, C:R.600, C:R.603, C:R.607, C:R.607, D:H.300 G6P.14: 11 residues within 4Å: Chain C: H.300 Chain D: Q.303, N.304, H.306, A.307, K.310, H.520, R.600, R.603, I.604, R.607 11 PLIP interactions: 2 interactions with chain C, 9 interactions with chain D Hydrogen bonds: C:E.301, D:Q.303, D:Q.303 Salt bridges: C:H.300, D:H.306, D:K.310, D:H.520, D:R.600, D:R.603, D:R.607, D:R.607

4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 4 residues within 4Å: Chain A: K.411, F.414 Chain C: E.311, H.403 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:H.403, A:K.411 PEG.10: 6 residues within 4Å: Chain B: G.410, K.411, F.414 Chain D: E.311, R.318, E.399 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:K.411, D:E.311 PEG.11: 5 residues within 4Å: Chain B: E.311, R.318, E.399, H.403 Chain D: F.414 No protein-ligand interaction detected (PLIP) PEG.13: 5 residues within 4Å: Chain A: E.311, R.318, E.399 Chain C: K.411, F.414 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.411

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Baskaran, S. et al., Multiple Glycogen-binding Sites in Eukaryotic Glycogen Synthase Are Required for High Catalytic Efficiency toward Glycogen. J.Biol.Chem. (2011)

Release Date

2011-08-10

Peptides

PROTEIN (Glycogen [starch] synthase isoform 2): ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

PROTEIN (Glycogen [starch] synthase isoform 2)

Related Entries With Identical Sequence