SMTL ID : 1qm5.1

Phosphorylase recognition and phosphorylysis of its oligosaccharide substrate: answers to a long outstanding question

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x GLC- GLC- GLC- SGC: 4-thio-beta-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose

GLC-GLC-GLC-SGC.1: 22 residues within 4Å: Chain A: E.67, N.112, G.113, G.114, L.115, G.116, Y.256, D.259, R.268, D.307, H.309, H.345, T.346, E.350, A.351, R.534, H.536, A.575, G.577, Y.578 Ligands: PO4.3, GLC.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.112, A:R.268, A:E.350, A:R.534, A:G.113, A:L.115, A:G.116, A:Y.256, A:D.307 Water bridges: A:N.112, A:N.112, A:N.112, A:D.259, A:D.259 GLC-GLC-GLC-SGC.2: 22 residues within 4Å: Chain B: E.67, N.112, G.113, G.114, L.115, G.116, Y.256, D.259, R.268, D.307, H.309, H.345, T.346, E.350, A.351, R.534, H.536, A.575, G.577, Y.578 Ligands: PO4.6, GLC.7 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.112, B:R.268, B:E.350, B:R.534, B:G.113, B:L.115, B:G.116, B:D.307, B:D.307 Water bridges: B:N.112, B:N.112, B:N.112, B:D.259, B:D.259

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 8 residues within 4Å: Chain A: G.113, G.114, R.534, Y.538, K.539 Ligands: GLC-GLC-GLC-SGC.1, GLC.4, PLP.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.114, A:L.115 Salt bridges: A:R.534, A:K.539 PO4.6: 8 residues within 4Å: Chain B: G.113, G.114, R.534, Y.538, K.539 Ligands: GLC-GLC-GLC-SGC.2, GLC.7, PLP.8 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.114, B:L.115, B:Y.538 Salt bridges: B:R.534, B:K.539

2 x GLC: alpha-D-glucopyranose(Non-covalent)

GLC.4: 14 residues within 4Å: Chain A: G.114, L.115, H.345, T.346, V.420, N.449, R.534, Y.538, E.637, A.638, S.639, G.640 Ligands: GLC-GLC-GLC-SGC.1, PO4.3 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:T.346, A:N.449, A:N.449, A:R.534, A:E.637, A:E.637, A:S.639, A:G.640 Water bridges: A:T.346, A:A.638 GLC.7: 14 residues within 4Å: Chain B: G.114, L.115, H.345, T.346, V.420, N.449, R.534, Y.538, E.637, A.638, S.639, G.640 Ligands: GLC-GLC-GLC-SGC.2, PO4.6 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:H.345, B:T.346, B:N.449, B:N.449, B:R.534, B:Y.538, B:E.637, B:S.639, B:G.640 Water bridges: B:T.346, B:A.638

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Non-covalent)

PLP.5: 16 residues within 4Å: Chain A: L.69, G.113, G.114, R.117, W.456, I.532, K.533, K.539, Y.613, C.614, V.615, G.640, T.641, G.642, K.645 Ligands: PO4.3 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.69, A:Y.613, A:K.645 Hydrogen bonds: A:I.532, A:T.641, A:T.641, A:G.642 Water bridges: A:K.533, A:K.533, A:N.643 Salt bridges: A:K.533, A:K.539 PLP.8: 16 residues within 4Å: Chain B: L.69, G.113, G.114, R.117, W.456, I.532, K.533, K.539, Y.613, C.614, V.615, G.640, T.641, G.642, K.645 Ligands: PO4.6 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:L.69, B:Y.613, B:K.645 Hydrogen bonds: B:I.532, B:T.641, B:T.641, B:G.642 Water bridges: B:K.533, B:K.533, B:Y.613, B:N.643 Salt bridges: B:K.533, B:K.539

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watson, K.A. et al., Phosphorylase Recognition and Phosphorolysis of its Oligosaccharide Substrate: Answers to a Long Outstanding Question. Embo J. (1999)

Release Date

2000-02-03

Peptides

MALTODEXTRIN PHOSPHORYLASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

MALTODEXTRIN PHOSPHORYLASE

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