SMTL ID : 5l6s.3 (3 other biounits)

Crystal structure of E. coli ADP-glucose pyrophosphorylase (AGPase) in complex with a positive allosteric regulator beta-fructose-1,6-diphosphate (FBP) - AGPase*FBP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.04 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: R.40, H.46, R.52, T.79, R.386 4 PLIP interactions: 4 interactions with chain A Salt bridges: A:R.40, A:H.46, A:R.52, A:R.386 SO4.2: 6 residues within 4Å: Chain A: R.322, S.341, R.355, N.357, S.358, R.375 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.341, A:S.341, A:N.357, A:S.358 Salt bridges: A:R.355, A:R.375 SO4.3: 5 residues within 4Å: Chain A: R.29, G.30, T.31, R.32, G.278 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.30, A:T.31, A:R.32 Salt bridges: A:R.29, A:R.32 SO4.5: 5 residues within 4Å: Chain B: R.40, H.46, R.52, T.79, R.386 4 PLIP interactions: 4 interactions with chain B Salt bridges: B:R.40, B:H.46, B:R.52, B:R.386 SO4.6: 6 residues within 4Å: Chain B: R.322, S.341, R.355, N.357, S.358, R.375 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.322, B:S.341, B:N.357, B:S.358 Salt bridges: B:R.355, B:R.375 SO4.7: 3 residues within 4Å: Chain B: G.30, T.31, R.32 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.30, B:T.31, B:T.31, B:R.32 Salt bridges: B:R.32 SO4.8: 3 residues within 4Å: Chain C: G.30, T.31, R.32 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:G.30, C:T.31, C:R.32 Salt bridges: C:R.32, C:K.42 SO4.9: 5 residues within 4Å: Chain C: S.341, R.355, N.357, S.358, R.375 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:S.341, C:S.358, C:S.358 Salt bridges: C:R.355, C:R.375 SO4.10: 5 residues within 4Å: Chain C: R.40, H.46, R.52, T.79, R.386 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:T.79 Salt bridges: C:R.40, C:H.46, C:R.52, C:R.386 SO4.11: 5 residues within 4Å: Chain D: R.40, H.46, R.52, T.79, R.386 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:T.79 Salt bridges: D:R.40, D:H.46, D:R.52, D:R.386 SO4.12: 6 residues within 4Å: Chain D: R.322, S.341, R.355, N.357, S.358, R.375 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:S.341, D:N.357, D:S.358, D:S.358 Salt bridges: D:R.355, D:R.375 SO4.13: 3 residues within 4Å: Chain D: G.30, T.31, R.32 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:G.30, D:T.31, D:R.32, D:G.278 Salt bridges: D:R.32, D:K.42

2 x FBP: 1,6-di-O-phosphono-beta-D-fructofuranose(Non-covalent)

FBP.4: 9 residues within 4Å: Chain A: K.39, R.419, E.420, R.423, K.428, Q.429, E.430, R.431 Chain C: R.130 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:R.419, A:E.420, A:E.420, A:R.423, A:Q.429, A:E.430, A:R.431, C:R.130 Salt bridges: A:K.39, A:R.419, A:R.423, A:R.423 FBP.14: 6 residues within 4Å: Chain B: D.126 Chain D: R.419, R.423, K.428, Q.429, E.430 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:R.419, D:R.423, D:Q.429, D:E.430 Salt bridges: D:R.423, D:R.423

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cifuente, J.O. et al., Structural Basis of Glycogen Biosynthesis Regulation in Bacteria. Structure (2016)

Release Date

2016-09-07

Peptides

Glucose-1-phosphate adenylyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
I

B
J

C
K

D
L

Glucose-1-phosphate adenylyltransferase

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