SMTL ID : 2ddt.2 (1 other biounit)

Crystal structure of sphingomyelinase from Bacillus cereus with magnesium ion

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 1 residues within 4Å: Chain A: E.53 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:E.53, H2O.1, H2O.1, H2O.1, H2O.1, H2O.2 MG.2: 5 residues within 4Å: Chain A: F.55, N.57, R.80, E.99, D.100 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:F.55, A:E.99, A:D.100, H2O.2, H2O.2

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

SO4.3: 5 residues within 4Å: Chain A: A.40, D.41, Y.42, K.275, Y.293 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.41, A:Y.42, A:Y.293

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.4: 10 residues within 4Å: Chain A: Y.25, P.26, N.27, W.28, Y.242, V.281, S.283, W.284, Y.288, Y.290 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.27, A:N.27, A:S.283, A:Y.290

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ago, H. et al., Structural basis of the sphingomyelin phosphodiesterase activity in neutral sphingomyelinase from Bacillus cereus. J.Biol.Chem. (2006)

Release Date

2006-05-02

Peptides

Sphingomyelin phosphodiesterase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Sphingomyelin phosphodiesterase

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