› 5obe

X-ray diffraction
1.82Å resolution

X-ray structure of the adduct formed upon reaction of ribonuclease A with the compound fac-[RuII(CO)3Cl2(N3-MBI), MBI=methyl-benzimidazole

Released:
DOI: 10.2210/pdb5obe/pdb
PDB entry 5obe coloured by chain, front view.
PDB entry 5obe coloured by chain, side view.
PDB entry 5obe coloured by chain, top view.
Source organism: Bos taurus
Primary publication:
Ru-Based CO releasing molecules with azole ligands: interaction with proteins and the CO release mechanism disclosed by X-ray crystallography.
Pontillo N, Ferraro G, Messori L, Tamasi G, Merlino A
Dalton Trans 46 9621-9629 (2017)
PMID: 28702564

Function and Biology Details

Reaction catalysed: 
(1a) an (RNA) containing cytidine = an (RNA)-3'-cytidine-2',3'-cyclophosphate + a 5'-hydroxy-ribonucleotide-3'-(RNA)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-158390 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribonuclease pancreatic Chains: A, B
Molecule details ›
Chains: A, B
Length: 124 amino acids
Theoretical weight: 13.71 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P61823 (Residues: 27-150; Coverage: 100%)
Gene names: RNASE1, RNS1
Sequence domains: Pancreatic ribonuclease
Structure domains: Ribonuclease A-like domain

Ligands and Environments

3 bound ligands:
Ligand RU2 1 x RU2
Ligand PO4 2 x PO4
Ligand 9Q8 1 x 9Q8
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: C2
Unit cell:
a: 100.651Å b: 32.983Å c: 73.046Å
α: 90° β: 90.21° γ: 90°
R-values:
R R work R free
0.169 0.165 0.236

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Citations

2 review citations

Nature's marvels endowed in gaseous molecules I: Carbon monoxide and its physiological and therapeutic roles.
Yang et al. (2021)
1 more