SMTL ID : 1pyg.1

STRUCTURAL BASIS FOR THE ACTIVATION OF GLYCOGEN PHOSPHORYLASE B BY ADENOSINE MONOPHOSPHATE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.87 Å

Oligo State

homo-tetramer

Ligands

4 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.1: 13 residues within 4Å: Chain A: W.67, Q.71, Q.72, Y.75, R.309, R.310, K.315, F.316, G.317, C.318 Chain B: D.42, N.44, V.45 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.315, A:G.317, B:N.44 Salt bridges: A:R.309, A:R.310 pi-Stacking: A:Y.75, A:Y.75 AMP.3: 13 residues within 4Å: Chain A: D.42, N.44, V.45 Chain B: W.67, Q.71, Y.75, R.242, R.309, R.310, K.315, F.316, G.317, C.318 9 PLIP interactions: 7 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.75, B:R.242, B:K.315, B:G.317, A:D.42, A:N.44 Salt bridges: B:R.309, B:R.310 pi-Stacking: B:Y.75 AMP.5: 15 residues within 4Å: Chain C: W.67, I.68, Q.71, Q.72, Y.75, R.242, R.309, R.310, K.315, F.316, G.317, C.318 Chain D: D.42, N.44, V.45 9 PLIP interactions: 2 interactions with chain D, 7 interactions with chain C Hydrogen bonds: D:D.42, D:N.44, C:Y.75, C:K.315, C:G.317 Salt bridges: C:R.309, C:R.310 pi-Stacking: C:Y.75, C:Y.75 AMP.7: 15 residues within 4Å: Chain C: D.42, N.44, V.45 Chain D: W.67, I.68, Q.71, Q.72, Y.75, R.242, R.309, R.310, K.315, F.316, G.317, C.318 9 PLIP interactions: 2 interactions with chain C, 7 interactions with chain D Hydrogen bonds: C:D.42, C:N.44, D:R.242, D:K.315, D:G.317 Salt bridges: D:R.309, D:R.310 pi-Stacking: D:Y.75, D:Y.75

4 x PDP: PYRIDOXAL-5'-DIPHOSPHATE(Covalent)

PDP.2: 15 residues within 4Å: Chain A: Y.90, G.135, W.491, V.567, K.568, R.569, Y.648, R.649, V.650, A.653, E.672, G.675, T.676, G.677, K.680 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.90, A:Y.648, A:K.680 Hydrogen bonds: A:Y.648, A:E.672, A:T.676, A:G.677, A:N.678, A:K.680 Salt bridges: A:K.568, A:K.568, A:K.574 PDP.4: 17 residues within 4Å: Chain B: Y.90, G.134, G.135, W.491, V.567, K.568, R.569, K.574, Y.648, R.649, V.650, A.653, G.675, T.676, G.677, N.678, K.680 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:Y.90, B:Y.648, B:K.680 Hydrogen bonds: B:T.676, B:T.676, B:G.677, B:N.678 Salt bridges: B:K.568, B:K.568, B:R.569, B:K.574 PDP.6: 12 residues within 4Å: Chain C: Y.90, G.135, W.491, K.568, Y.648, R.649, V.650, A.653, G.675, T.676, G.677, K.680 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:Y.90, C:Y.648, C:V.650, C:K.680 Hydrogen bonds: C:Y.90, C:T.676, C:T.676, C:G.677 Salt bridges: C:K.568, C:K.568, C:K.574 PDP.8: 17 residues within 4Å: Chain D: Y.90, G.135, R.138, W.491, K.568, R.569, K.574, Y.648, R.649, V.650, A.653, E.672, G.675, T.676, G.677, N.678, K.680 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:Y.90, D:R.138, D:Y.648, D:K.680 Hydrogen bonds: D:G.135, D:T.676, D:G.677, D:K.680 Salt bridges: D:K.568, D:K.568, D:R.569, D:K.574

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sprang, S.R. et al., Structural basis for the activation of glycogen phosphorylase b by adenosine monophosphate. Science (1991)

Release Date

1994-01-31

Peptides

GLYCOGEN PHOSPHORYLASE B: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

GLYCOGEN PHOSPHORYLASE B

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