SMTL ID : 2qxf.1

Product bound structure of exonuclease I at 1.5 angstrom resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: E.17, D.186 Ligands: NA.3 6 PLIP interactions: 2 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.17, A:D.186, H2O.5, H2O.7, H2O.10, H2O.10 MG.2: 3 residues within 4Å: Chain A: D.15, Y.16 Ligands: TMP.4 6 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:D.15, H2O.3, H2O.4, H2O.4, H2O.4, TMP.4

1 x NA: SODIUM ION(Non-functional Binders)

NA.3: 4 residues within 4Å: Chain A: E.17, A.183, D.186 Ligands: MG.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.15, A:E.17, A:D.186, A:D.186 Water bridges: A:D.186

1 x TMP: THYMIDINE-5'-PHOSPHATE(Non-covalent)

TMP.4: 10 residues within 4Å: Chain A: Y.16, E.17, T.18, T.21, A.63, I.66, T.67, F.107, R.165 Ligands: MG.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.67 Hydrogen bonds: A:Y.16, A:T.18 Water bridges: A:A.63, A:R.165, A:R.165, A:D.186 Salt bridges: A:R.165

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Busam, R.D., Structure of Escherichia coli exonuclease I in complex with thymidine 5'-monophosphate. Acta Crystallogr.,Sect.D (2008)

Release Date

2008-01-22

Peptides

Exodeoxyribonuclease I: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Exodeoxyribonuclease I

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