SMTL ID : 4kwu.1

1.9 Angstrom resolution crystal structure of uncharacterized protein lmo2446 from Listeria monocytogenes EGD-e in complex with alpha-D-glucose, beta-D-glucose, magnesium and calcium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

8 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 3 residues within 4Å: Chain A: E.394, D.396, D.400 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.394, A:D.396, A:D.400, H2O.14, H2O.41, H2O.44 MG.2: 1 residues within 4Å: Chain A: N.370 No protein-ligand interaction detected (PLIP) MG.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x CA: CALCIUM ION(Non-covalent)

CA.9: 5 residues within 4Å: Chain A: E.963, E.965, T.982, G.985, D.1078 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.963, A:E.965, A:T.982, A:G.985, A:D.1078

4 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.10: 4 residues within 4Å: Chain A: K.52, W.139, Q.260, Q.331 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:W.139, A:Q.260, A:Q.331 Water bridges: A:K.52, A:K.52, A:K.52, A:K.52, A:Q.260, A:N.262, A:Q.331, A:K.335, A:K.339, A:S.341, A:S.341 Salt bridges: A:K.335 BGC.11: 3 residues within 4Å: Chain A: W.64, N.96, N.97 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.96, A:N.97, A:N.97 Water bridges: A:N.96 BGC.12: 4 residues within 4Å: Chain A: D.71, W.73, N.85, T.87 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.71, A:N.85 Water bridges: A:D.71, A:D.71 BGC.13: 7 residues within 4Å: Chain A: N.294, W.521, R.607, D.623, F.656, E.684 Ligands: GLC.16 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.294, A:N.294, A:N.294, A:R.607, A:R.607, A:E.684 Water bridges: A:D.558, A:D.623, A:E.684

6 x GLC: alpha-D-glucopyranose(Non-covalent)

GLC.14: 5 residues within 4Å: Chain A: T.436, Y.437, Y.489, E.490, Q.491 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.437, A:E.490, A:Q.491 Water bridges: A:Y.437, A:Y.437, A:A.439 GLC.15: 5 residues within 4Å: Chain A: D.425, E.427, N.433, N.434, Y.489 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.433, A:N.433, A:N.434 Water bridges: A:N.433, A:N.434, A:N.434, A:K.456 GLC.16: 8 residues within 4Å: Chain A: N.393, E.421, Q.422, E.426, Y.429, W.477, W.521 Ligands: BGC.13 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.393, A:E.421, A:Y.429 Water bridges: A:W.423 GLC.17: 6 residues within 4Å: Chain A: E.67, N.68, G.69, Q.70, Y.90, W.100 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.67, A:G.69, A:Q.70, A:Q.70 Water bridges: A:E.67, A:E.67 GLC.18: 6 residues within 4Å: Chain A: H.978, A.988, G.989, D.991, W.1044, N.1076 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.978, A:G.989, A:D.991, A:N.1076, A:N.1076 GLC.19: 8 residues within 4Å: Chain A: D.791, N.794, G.796, H.798, S.805, Y.806, Y.807, F.966 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.791, A:N.794, A:Y.807, A:Y.807 Water bridges: A:S.805

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Halavaty, A.S. et al., 1.9 Angstrom resolution crystal structure of uncharacterized protein lmo2446 from Listeria monocytogenes EGD-e in complex with alpha-D-glucose, beta-D-glucose, magnesium and calcium. To be Published

Release Date

2013-06-19

Peptides

Lmo2446 protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lmo2446 protein

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