SMTL ID : 6j7z.1

Human mitochondrial Oligoribonuclease in complex with RNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

homo-dimer

Ligands

1 x U- U: RNA (5'-R(P*UP*U)-3')(Non-covalent)

U-U.1: 20 residues within 4Å: Chain A: Y.132, R.133 Chain B: D.15, L.16, E.17, M.18, T.19, G.20, L.21, W.64, C.65, H.69, N.110, S.111, E.114, S.138, K.141, H.162 Ligands: MG.3, MG.4 Protein-ligand interaction information (PLIP) not available

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.2: 6 residues within 4Å: Chain A: L.93, R.97, P.102, Q.125, K.128, H.129 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.97, A:Q.125 Water bridges: A:K.128 Salt bridges: A:R.97, A:R.97, A:H.129

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain B: D.15, E.17, H.162, A.167 Ligands: U-U.1 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.17, H2O.5 MG.4: 4 residues within 4Å: Chain B: D.15, N.110 Ligands: U-U.1, U-U.1 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.15, H2O.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chu, L.Y. et al., Structural insights into nanoRNA degradation by human Rexo2. Rna (2019)

Release Date

2019-08-28

Peptides

Oligoribonuclease, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Oligoribonuclease, mitochondrial