SMTL ID : 4rhh.2 (1 other biounit)

Crystal structure of the catalytic mutant Xyn52B2-E335G, a GH52 Beta-D-xylosidase from Geobacillus stearothermophilus T6

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: D.467, N.475, V.477, G.479 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.467, A:V.477, H2O.4, H2O.4, H2O.5 CA.4: 1 residues within 4Å: Chain A: C.420 No protein-ligand interaction detected (PLIP) CA.5: 4 residues within 4Å: Chain B: D.467, N.475, V.477, G.479 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.467, B:D.467, B:V.477, H2O.21, H2O.24

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

TRS.2: 5 residues within 4Å: Chain A: M.258, K.328, D.367, F.368, E.371 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.329, A:D.367 TRS.3: 12 residues within 4Å: Chain A: Y.338, T.343, D.345, L.346, H.396, M.424, T.493, D.495, W.632, S.688, Y.691, R.693 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:H.396, A:T.493, A:Y.691, A:R.693 Water bridges: A:D.495, A:D.495, A:D.495, A:Q.679, A:S.688, A:S.688, A:Y.691, A:Y.691 TRS.6: 5 residues within 4Å: Chain B: M.258, H.325, K.328, F.368, E.371 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.328, B:K.328 Water bridges: B:N.364, B:N.364, B:N.364 TRS.7: 12 residues within 4Å: Chain B: Y.338, M.340, T.343, D.345, H.396, Y.412, T.493, D.495, W.632, S.688, Y.691, R.693 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:D.345, B:T.493, B:Y.691, B:Y.691, B:R.693 Water bridges: B:Y.412, B:D.495, B:S.688, B:S.688

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dann, R. et al., To be published. To be Published

Release Date

2015-10-14

Peptides

Beta-xylosidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Beta-xylosidase

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