SMTL ID : 3tr8.1

Structure of an oligoribonuclease (orn) from Coxiella burnetii

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

4 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 6 residues within 4Å: Chain A: D.15, L.16, E.17, D.166 Ligands: MN.2, MG.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.15, A:D.15, A:E.17, A:D.166 MN.2: 4 residues within 4Å: Chain A: D.15, L.16 Ligands: MN.1, MG.3 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.15, H2O.2 MN.4: 6 residues within 4Å: Chain B: D.15, L.16, E.17, D.166 Ligands: MN.5, MG.7 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.15, B:E.17, B:D.166 MN.5: 4 residues within 4Å: Chain B: D.15, L.16 Ligands: MN.4, MG.7 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.15, H2O.4, H2O.4

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: E.17, D.166 Ligands: MN.1, MN.2 No protein-ligand interaction detected (PLIP) MG.7: 4 residues within 4Å: Chain B: E.17, D.166 Ligands: MN.4, MN.5 No protein-ligand interaction detected (PLIP)

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 3 residues within 4Å: Chain A: R.146 Chain B: D.8, D.9 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:D.9 Water bridges: A:R.146 Salt bridges: A:R.146

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Franklin, M.C. et al., Structural genomics for drug design against the pathogen Coxiella burnetii. Proteins (2015)

Release Date

2011-09-21

Peptides

Oligoribonuclease: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Oligoribonuclease