SMTL ID : 7ug9.1

Crystal structure of RNase AM PHP domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

monomer

Ligands

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

MN.1: 6 residues within 4Å: Chain A: E.72, H.83, H.198, R.201 Ligands: MN.3, SO4.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.72, A:H.83, A:H.198 MN.2: 5 residues within 4Å: Chain A: H.15, D.20, H.45, H.257 Ligands: SO4.4 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.20, A:D.20, A:H.45, A:H.257, H2O.3 MN.3: 6 residues within 4Å: Chain A: H.13, H.15, E.72, D.255 Ligands: MN.1, SO4.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.13, A:H.15, A:E.72, A:D.255

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 12 residues within 4Å: Chain A: H.13, H.15, H.45, E.72, H.83, H.198, R.201, D.255, H.257 Ligands: MN.1, MN.2, MN.3 7 PLIP interactions: 7 interactions with chain A Water bridges: A:R.201 Salt bridges: A:H.15, A:H.45, A:H.83, A:H.198, A:R.201, A:H.257

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sharma, S. et al., Identification of a novel deFADding activity in human, yeast and bacterial 5' to 3' exoribonucleases. Nucleic Acids Res. (2022)

Release Date

2022-08-31

Peptides

5'-3' exoribonuclease: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

5'-3' exoribonuclease