SMTL ID : 6t0i.1

The wild type glucuronoyl esterase OtCE15A from Opitutus terrae in complex with the aldotetrauronic acid XUX

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

monomer

Ligands

1 x XYP- XYP- GCV- XYP: 4-O-methyl-alpha-D-glucopyranuronic acid-(1-2)-[beta-D-xylopyranose-(1-4)]beta-D-xylopyranose-(1-4)-beta-D-xylopyranose

XYP-XYP-GCV-XYP.1: 19 residues within 4Å: Chain A: F.130, S.256, R.257, K.260, E.279, S.280, G.281, C.282, E.294, I.299, V.302, F.303, W.306, W.347, A.348, P.396, H.397 Ligands: EDO.12, EDO.13 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.257, A:R.257, A:K.260, A:E.294, A:W.347, A:H.397 Water bridges: A:C.282, A:E.294, A:E.294, A:H.397 Salt bridges: A:R.257, A:H.397

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: C.282, H.292, E.294, T.295, D.349 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.292, A:E.294, H2O.1, H2O.7, H2O.9

1 x K: POTASSIUM ION(Non-covalent)

K.3: 5 residues within 4Å: Chain A: L.239, E.240, D.242, V.245, A.247 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:L.239, A:E.240, A:D.242, A:V.245, H2O.8

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

EDO.4: 4 residues within 4Å: Chain A: Q.171, T.400, A.401, Q.402 Ligand excluded by PLIP EDO.5: 8 residues within 4Å: Chain A: L.52, Q.53, A.56, R.62, T.63, W.264, Q.268 Ligands: EDO.17 Ligand excluded by PLIP EDO.6: 5 residues within 4Å: Chain A: R.67, E.69, G.70, M.71, R.98 Ligand excluded by PLIP EDO.7: 4 residues within 4Å: Chain A: N.381, E.382, P.383, F.406 Ligand excluded by PLIP EDO.8: 6 residues within 4Å: Chain A: V.30, G.31, A.32, G.34, R.36 Ligands: EDO.16 Ligand excluded by PLIP EDO.9: 5 residues within 4Å: Chain A: S.373, P.383, S.384, G.385, G.386 Ligand excluded by PLIP EDO.10: 4 residues within 4Å: Chain A: V.75, T.76, T.77, M.78 Ligand excluded by PLIP EDO.11: 6 residues within 4Å: Chain A: I.116, A.119, E.120, R.121, P.243, L.244 Ligand excluded by PLIP EDO.12: 6 residues within 4Å: Chain A: E.152, R.257, F.303 Ligands: XYP-XYP-GCV-XYP.1, XYP-XYP-GCV-XYP.1, XYP-XYP-GCV-XYP.1 Ligand excluded by PLIP EDO.13: 8 residues within 4Å: Chain A: F.130, Y.131, H.255, R.257, H.397 Ligands: XYP-XYP-GCV-XYP.1, XYP-XYP-GCV-XYP.1, XYP-XYP-GCV-XYP.1 Ligand excluded by PLIP EDO.14: 5 residues within 4Å: Chain A: L.65, P.68, E.69, W.208, L.209 Ligand excluded by PLIP EDO.15: 6 residues within 4Å: Chain A: K.74, T.76, T.93, R.95, P.100, Q.106 Ligand excluded by PLIP EDO.16: 9 residues within 4Å: Chain A: P.26, D.27, V.30, G.31, A.32, R.47, L.54, P.322 Ligands: EDO.8 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain A: T.63, P.64, L.65, G.66 Ligands: EDO.5 Ligand excluded by PLIP EDO.18: 2 residues within 4Å: Chain A: A.180, R.181 Ligand excluded by PLIP EDO.19: 6 residues within 4Å: Chain A: T.24, L.25, L.287, K.289, R.290, L.355 Ligand excluded by PLIP

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.20: 8 residues within 4Å: Chain A: T.77, P.140, A.141, I.142, A.143, L.144, E.163, R.166 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.144, A:R.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mazurkewich, S. et al., Structural and biochemical studies of the glucuronoyl esteraseOtCE15A illuminate its interaction with lignocellulosic components. J.Biol.Chem. (2019)

Release Date

2019-11-27

Peptides

glucuronoyl esterase OtCE15A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

glucuronoyl esterase OtCE15A

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