SMTL ID : 3h1c.13 (15 other biounits)

Crystal structure of Polynucleotide Phosphorylase (PNPase) core bound to RNase E and Tungstate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.57 Å

Oligo State

homo-trimer

Ligands

6 x WO4: TUNGSTATE(VI)ION(Non-covalent)

WO4.1: 7 residues within 4Å: Chain A: R.93, R.399, H.403, D.492, Q.506, D.508 Ligands: WO4.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.93, A:Q.506 WO4.2: 6 residues within 4Å: Chain A: H.403, S.437, D.486, D.492, K.494 Ligands: WO4.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.437, A:D.492, A:K.494 WO4.3: 7 residues within 4Å: Chain B: Y.380, H.403, G.436, S.437, S.438, S.439 Ligands: WO4.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.403, B:G.436, B:S.438, B:S.439 WO4.4: 5 residues within 4Å: Chain B: R.93, H.403, Q.506, D.508 Ligands: WO4.3 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.93, B:Q.506 WO4.5: 9 residues within 4Å: Chain C: Y.380, H.403, G.436, S.437, S.438, S.439, D.492, K.494 Ligands: WO4.6 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:S.438, C:S.439, C:S.439, C:D.492, C:K.494 WO4.6: 7 residues within 4Å: Chain C: R.93, R.97, R.399, H.403, Q.506, D.508 Ligands: WO4.5 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.93, C:R.93, C:H.403, C:Q.506, C:D.508

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nurmohamed, S. et al., Crystal structure of Escherichia coli polynucleotide phosphorylase core bound to RNase E, RNA and manganese: implications for catalytic mechanism and RNA degradosome assembly. J.Mol.Biol. (2009)

Release Date

2009-05-19

Peptides

Polyribonucleotide nucleotidyltransferase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
T

B
V

C
X

Polyribonucleotide nucleotidyltransferase

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