SMTL ID : 2hbl.1

Structure of the yeast nuclear exosome component, Rrp6p, reveals an interplay between the active site and the HRDC domain; Protein in complex with Mn, Zn, and AMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: D.112, E.114, D.239 Ligands: AMP.3 5 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:D.112, A:E.114, A:D.239, H2O.1, AMP.3

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

MN.2: 4 residues within 4Å: Chain A: D.112, L.113, D.170 Ligands: AMP.3 5 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:D.112, H2O.1, H2O.1, H2O.1, AMP.3

1 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.3: 10 residues within 4Å: Chain A: D.112, L.113, E.114, H.115, W.173, K.216, Q.219, W.223 Ligands: ZN.1, MN.2 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:D.112, A:E.114, A:H.115, A:H.115, A:K.216, A:K.216 Water bridges: A:D.112, A:L.113, A:H.115, A:Q.219, A:Q.219

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Midtgaard, S.F. et al., Structure of the nuclear exosome component Rrp6p reveals an interplay between the active site and the HRDC domain. Proc.Natl.Acad.Sci.Usa (2006)

Release Date

2006-07-25

Peptides

Exosome complex exonuclease RRP6: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Exosome complex exonuclease RRP6

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