SMTL ID : 2azd.1

X-Ray studies on Maltodextrin Phosphorylase (MalP) Complexes: recognition of substrates and CATALYTIC mechanism of phosphorylase family

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

homo-dimer

Ligands

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

BGC-GLC-GLC-GLC.1: 18 residues within 4Å: Chain A: E.67, N.112, G.113, G.114, L.115, Y.256, D.259, R.268, D.307, H.309, H.345, R.534, H.536, A.575, G.577, Y.578 Ligands: VO4.3, TRS.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.536, A:G.577, A:G.113, A:G.113, A:L.115, A:D.307 Water bridges: A:Y.579 BGC-GLC-GLC-GLC.2: 17 residues within 4Å: Chain B: E.67, N.112, G.113, G.114, L.115, Y.256, D.259, R.268, D.307, H.309, H.345, R.534, H.536, A.575, Y.578 Ligands: VO4.6, TRS.8 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:H.536, B:G.113, B:G.113, B:L.115, B:Y.256, B:D.307, B:D.307

2 x VO4: VANADATE ION(Non-covalent)

VO4.3: 6 residues within 4Å: Chain A: G.114, R.534, K.539 Ligands: BGC-GLC-GLC-GLC.1, PLP.4, TRS.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.114, A:R.534, A:K.539 Water bridges: A:R.534, A:R.534 VO4.6: 6 residues within 4Å: Chain B: G.114, R.534, K.539 Ligands: BGC-GLC-GLC-GLC.2, PLP.7, TRS.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.114, B:R.534, B:K.539

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.4: 16 residues within 4Å: Chain A: L.69, G.113, G.114, R.117, W.456, I.532, K.533, Y.613, C.614, V.615, A.618, G.640, T.641, G.642, K.645 Ligands: VO4.3 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.69, A:R.117, A:Y.613, A:K.645 Hydrogen bonds: A:I.532, A:T.641, A:T.641, A:G.642 Water bridges: A:R.534 Salt bridges: A:K.533 PLP.7: 15 residues within 4Å: Chain B: L.69, G.113, G.114, R.117, W.456, I.532, K.533, Y.613, C.614, V.615, G.640, T.641, G.642, K.645 Ligands: VO4.6 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:R.117, B:Y.613, B:K.645 Hydrogen bonds: B:I.532, B:Y.613, B:T.641, B:T.641, B:G.642 Water bridges: B:K.533 Salt bridges: B:K.533

2 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.5: 10 residues within 4Å: Chain A: G.114, L.115, H.345, V.420, N.449, S.639, G.640, T.641 Ligands: BGC-GLC-GLC-GLC.1, VO4.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.345, A:N.449, A:G.640 Water bridges: A:A.638, A:S.639 TRS.8: 9 residues within 4Å: Chain B: G.114, L.115, H.345, V.420, N.449, S.639, G.640 Ligands: BGC-GLC-GLC-GLC.2, VO4.6 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.345, B:N.449, B:G.640 Water bridges: B:S.639

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Campagnolo, M. et al., X-ray studies on ternary complexes of maltodextrin phosphorylase. Arch.Biochem.Biophys. (2008)

Release Date

2005-09-20

Peptides

Maltodextrin phosphorylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Maltodextrin phosphorylase

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