› 6xhe

X-ray diffraction
1.88Å resolution

Structure of beta-prolinyl 5'-O-adenosine phosphoramidate

Released:
DOI: 10.2210/pdb6xhe/pdb
PDB entry 6xhe coloured by chain, front view.
PDB entry 6xhe coloured by chain, side view.
PDB entry 6xhe coloured by chain, top view.
Source organism: Bos taurus
Primary publication:
The Enzyme-Free Release of Nucleotides from Phosphoramidates Depends Strongly on the Amino Acid.
Jovanovic D, Tremmel P, Pallan PS, Egli M, Richert C
Angew Chem Int Ed Engl 59 20154-20160 (2020)
PMID: 32757352

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
Expression system: Bos taurus
UniProt:
  • Canonical: P61823 (Residues: 27-150; Coverage: 100%)
Gene names: RNASE1, RNS1
Sequence domains: Pancreatic ribonuclease

Ligands and Environments

2 bound ligands:
Ligand AMP 1 x AMP
Ligand V2J 1 x V2J
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-G
Spacegroup: C2
Unit cell:
a: 101.002Å b: 32.795Å c: 74.09Å
α: 90° β: 90.33° γ: 90°
R-values:
R R work R free
0.208 0.205 0.265
Expression system: Bos taurus

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Citations

2 review citations

The protometabolic nature of prebiotic chemistry.
Nogal et al. (2023)
1 more