SMTL ID : 7plb.1 (1 other biounit)

Caulobacter crescentus xylonolactonase with D-xylose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

monomer

Ligands

1 x FE2: FE (II) ION(Non-covalent)

FE2.1: 5 residues within 4Å: Chain A: E.18, N.101, N.146, D.196 Ligands: XYP.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.18, A:D.196, H2O.1, H2O.2

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: R.35, Q.55, K.73 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Q.55 Water bridges: A:R.35, A:R.35, A:R.35, A:R.35, A:R.35 Salt bridges: A:R.35, A:K.73

3 x XYP: beta-D-xylopyranose(Non-covalent)

XYP.3: 13 residues within 4Å: Chain A: L.16, E.18, I.32, R.99, N.101, M.116, E.120, I.144, N.146, D.196, W.211, K.256 Ligands: FE2.1 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.99, A:R.99, A:N.101, A:N.101, A:N.101, A:E.120 Water bridges: A:R.99, A:E.120 XYP.4: 5 residues within 4Å: Chain A: K.33, D.118, G.119, E.120, K.256 5 PLIP interactions: 5 interactions with chain A Water bridges: A:K.33, A:K.33, A:Q.55, A:Q.55 Salt bridges: A:K.33 XYP.5: 9 residues within 4Å: Chain A: V.185, Q.186, F.187, A.188, L.189, F.219, G.223, D.224, A.225 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.186, A:A.188, A:G.223, A:A.225 Water bridges: A:Q.186

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Paakkonen, J. et al., Three-dimensional structure of xylonolactonase from Caulobacter crescentus: A mononuclear iron enzyme of the 6-bladed beta-propeller hydrolase family. Protein Sci. (2022)

Release Date

2021-11-24

Peptides

Smp-30/Cgr1 family protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Smp-30/Cgr1 family protein

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