SMTL ID : 5cps.1

Disproportionating enzyme 1 from Arabidopsis - maltotriose soak

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

GLC-GLC-GLC-GLC-GLC-GLC-GLC-GLC-GLC.1: 32 residues within 4Å: Chain A: D.118, S.122, Y.124, A.125, V.314, D.317, L.318, F.319, Q.324, W.326, R.359, D.361, H.362, E.408, L.410, G.411, V.412, F.434, D.441, N.442, P.443, H.444, H.460, D.461, N.525, P.527, A.528, T.529, E.530, W.534 Chain B: L.61 Ligands: EDO.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.118

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

GLC-GLC-GLC-GLC-GLC-GLC-GLC-GLC.2: 27 residues within 4Å: Chain B: D.118, S.122, Y.124, A.125, V.314, Q.324, W.326, R.359, D.361, H.362, E.408, L.410, G.411, F.434, D.441, N.442, P.443, H.444, H.460, D.461, N.525, P.527, A.528, T.529, E.530, W.534 Ligands: EDO.12 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.118 Water bridges: B:D.118

16 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 5 residues within 4Å: Chain A: T.176, F.249, L.252, F.253, K.256 Ligand excluded by PLIP EDO.4: 6 residues within 4Å: Chain A: A.129, N.130, M.282, R.347, A.351, Y.355 Ligand excluded by PLIP EDO.5: 7 residues within 4Å: Chain A: P.283, I.284, Y.285, W.326, D.361 Ligands: GLC-GLC-GLC-GLC-GLC-GLC-GLC-GLC-GLC.1, GLC-GLC-GLC-GLC-GLC-GLC-GLC-GLC-GLC.1 Ligand excluded by PLIP EDO.6: 1 residues within 4Å: Chain A: P.228 Ligand excluded by PLIP EDO.7: 9 residues within 4Å: Chain A: A.351, Q.352, Y.355, D.356, E.357, C.358, I.403, K.404, I.405 Ligand excluded by PLIP EDO.8: 5 residues within 4Å: Chain A: E.207, D.208, Y.211, R.234, L.239 Ligand excluded by PLIP EDO.9: 9 residues within 4Å: Chain A: L.75, L.76, L.112, H.460, M.512, Q.513, M.524, W.536 Ligands: EDO.10 Ligand excluded by PLIP EDO.10: 11 residues within 4Å: Chain A: T.459, H.460, N.462, D.463, T.464, P.511, Q.513, D.514, R.523, M.524 Ligands: EDO.9 Ligand excluded by PLIP EDO.11: 5 residues within 4Å: Chain B: T.176, F.249, L.252, F.253, K.256 Ligand excluded by PLIP EDO.12: 7 residues within 4Å: Chain B: P.283, I.284, Y.285, D.361, H.362 Ligands: GLC-GLC-GLC-GLC-GLC-GLC-GLC-GLC.2, GLC-GLC-GLC-GLC-GLC-GLC-GLC-GLC.2 Ligand excluded by PLIP EDO.13: 7 residues within 4Å: Chain B: A.129, N.130, M.282, R.347, R.350, A.351, Y.355 Ligand excluded by PLIP EDO.14: 9 residues within 4Å: Chain B: A.351, Q.352, Y.355, D.356, E.357, C.358, I.403, K.404, I.405 Ligand excluded by PLIP EDO.15: 5 residues within 4Å: Chain B: E.207, D.208, Y.211, R.234, L.239 Ligand excluded by PLIP EDO.16: 6 residues within 4Å: Chain B: L.75, L.112, H.460, P.511, Q.513, M.524 Ligand excluded by PLIP EDO.17: 9 residues within 4Å: Chain B: T.459, H.460, N.462, D.463, T.464, P.511, Q.513, R.523, M.524 Ligand excluded by PLIP EDO.18: 7 residues within 4Å: Chain B: S.520, S.521, R.523, N.525, T.526, G.532, N.533 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

O'Neill, E.C. et al., Structural Dissection of the Maltodextrin Disproportionation Cycle of the Arabidopsis Plastidial Disproportionating Enzyme 1 (DPE1). J.Biol.Chem. (2015)

Release Date

2015-11-04

Peptides

4-alpha-glucanotransferase DPE1, chloroplastic/amyloplastic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

4-alpha-glucanotransferase DPE1, chloroplastic/amyloplastic

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