SMTL ID : 4m2z.1

Crystal structure of RNASE III complexed with double-stranded RNA and CMP (TYPE II CLEAVAGE)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

homo-dimer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 4 residues within 4Å: Chain A: D.44, E.110 Chain D: G.27 Ligands: C.5 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.44, A:E.110, A:E.110, H2O.1, H2O.1 MG.2: 4 residues within 4Å: Chain B: D.44, E.110 Chain C: G.27 Ligands: C.8 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.44, B:D.44, B:E.110, H2O.1, H2O.1 MG.3: 3 residues within 4Å: Chain A: E.40 Chain B: E.64 Chain C: A.1 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain C: A.1, A.2 No protein-ligand interaction detected (PLIP) MG.6: 4 residues within 4Å: Chain A: E.64 Chain B: D.107 Chain D: A.1 Ligands: C.8 No protein-ligand interaction detected (PLIP) MG.7: 2 residues within 4Å: Chain D: A.1, A.2 No protein-ligand interaction detected (PLIP)

2 x C: CYTIDINE-5'-MONOPHOSPHATE(Non-covalent)

C.5: 12 residues within 4Å: Chain A: E.40, F.41, D.44, E.110 Chain B: E.64, S.68, K.71 Chain C: A.1, G.25, C.26 Chain D: G.27 Ligands: MG.1 13 PLIP interactions: 6 interactions with chain A, 7 interactions with chain B Hydrogen bonds: A:E.64, A:S.68, A:S.68, A:K.71, A:E.110, B:E.64, B:E.64, B:S.68, B:S.68, B:K.71 Water bridges: A:N.48, B:N.48, B:E.110 C.8: 13 residues within 4Å: Chain A: E.64, S.68, K.71 Chain B: E.40, F.41, D.44, E.110 Chain C: G.27 Chain D: A.1, G.25, C.26 Ligands: MG.2, MG.6 Protein-ligand interaction information (PLIP) not available

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Court, D.L. et al., RNase III: Genetics and Function; Structure and Mechanism. Annu. Rev. Genet. (2013)

Release Date

2013-12-11

Peptides

Ribonuclease 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribonuclease 3

Related Entries With Identical Sequence