SMTL ID : 3ttq.1

Crystal structure of Leuconostoc mesenteroides NRRL B-1299 N-terminally truncated dextransucrase DSR-E in orthorhombic apo-form at 1.9 angstrom resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 4 residues within 4Å: Chain A: D.38, T.40, D.316, Q.317 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.38 Water bridges: A:Q.317

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.407, D.413, F.457, N.936 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.407, A:D.413, A:F.457, H2O.3, H2O.15

23 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: L.410, D.453, D.886, Y.893, V.934, Q.937 Ligand excluded by PLIP GOL.4: 4 residues within 4Å: Chain A: L.494, T.500, W.1006, Y.1019 Ligand excluded by PLIP GOL.5: 8 residues within 4Å: Chain A: D.151, Y.152, Q.153, D.154, G.155, D.168, K.169 Ligands: GOL.15 Ligand excluded by PLIP GOL.6: 7 residues within 4Å: Chain A: A.492, G.493, E.508, S.509, N.510, R.512, D.537 Ligand excluded by PLIP GOL.7: 5 residues within 4Å: Chain A: N.510, V.536, D.537, G.538, G.539 Ligand excluded by PLIP GOL.8: 8 residues within 4Å: Chain A: E.522, P.523, G.524, K.525, N.526, N.711, D.712, P.713 Ligand excluded by PLIP GOL.9: 8 residues within 4Å: Chain A: Y.36, D.38, F.49, V.50, K.289, H.314, S.315, D.316 Ligand excluded by PLIP GOL.10: 8 residues within 4Å: Chain A: Q.48, F.49, F.135, L.144, V.145, S.146, T.147, H.314 Ligand excluded by PLIP GOL.11: 6 residues within 4Å: Chain A: E.138, S.139, G.140, Y.217, L.218, F.363 Ligand excluded by PLIP GOL.12: 5 residues within 4Å: Chain A: D.245, H.246, W.257, M.278, Q.345 Ligand excluded by PLIP GOL.13: 2 residues within 4Å: Chain A: K.732, N.733 Ligand excluded by PLIP GOL.14: 6 residues within 4Å: Chain A: G.403, N.404, A.405, N.460, Y.1005, Y.1007 Ligand excluded by PLIP GOL.15: 4 residues within 4Å: Chain A: G.150, D.151, Y.152 Ligands: GOL.5 Ligand excluded by PLIP GOL.16: 5 residues within 4Å: Chain A: Y.399, N.418, P.419, V.420, Y.1042 Ligand excluded by PLIP GOL.17: 5 residues within 4Å: Chain A: H.430, N.434, T.437, I.438, Y.986 Ligand excluded by PLIP GOL.18: 3 residues within 4Å: Chain A: K.367, H.372, Q.380 Ligand excluded by PLIP GOL.19: 4 residues within 4Å: Chain A: N.676, H.677, K.722, T.724 Ligand excluded by PLIP GOL.20: 9 residues within 4Å: Chain A: V.568, F.599, Y.600, Q.603, Y.633, G.635, Y.638, D.640, S.838 Ligand excluded by PLIP GOL.21: 6 residues within 4Å: Chain A: E.480, E.551, N.552, T.812, N.816, N.825 Ligand excluded by PLIP GOL.22: 4 residues within 4Å: Chain A: T.749, F.750, N.751, S.752 Ligand excluded by PLIP GOL.23: 6 residues within 4Å: Chain A: D.565, G.567, V.568, Q.569, E.570, K.571 Ligand excluded by PLIP GOL.24: 4 residues within 4Å: Chain A: D.255, K.360, N.1051, Y.1055 Ligand excluded by PLIP GOL.25: 2 residues within 4Å: Chain A: H.239, L.1068 Ligand excluded by PLIP

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.26: 4 residues within 4Å: Chain A: L.252, Y.1065, F.1066, K.1067 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.1067

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brison, Y. et al., Functional and structural characterization of alpha-(1-2) branching sucrase derived from DSR-E glucansucrase. J.Biol.Chem. (2012)

Release Date

2012-01-25

Peptides

Dextransucrase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dextransucrase

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