› 1d5d

X-ray diffraction
2.25Å resolution

The role of phenylalanine 8 in the stabilization of the s protein-s peptide interaction: packing and cavities

Released:
DOI: 10.2210/pdb1d5d/pdb
PDB entry 1d5d coloured by chain, front view.
PDB entry 1d5d coloured by chain, side view.
PDB entry 1d5d coloured by chain, top view.
Source organism: Bos taurus
Primary publication:
Thermodynamic and structural studies of cavity formation in proteins suggest that loss of packing interactions rather than the hydrophobic effect dominates the observed energetics.
Ratnaparkhi GS, Varadarajan R
Biochemistry 39 12365-74 (2000)
PMID: 11015216

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:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-158391 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Ribonuclease pancreatic Chain: A
Molecule details ›
Chain: A
Length: 15 amino acids
Theoretical weight: 1.72 KDa
Source organism: Bos taurus
Expression system: Not provided
UniProt:
  • Canonical: P61823 (Residues: 27-41; Coverage: 12%)
Gene names: RNASE1, RNS1
Ribonuclease pancreatic Chain: B
Molecule details ›
Chain: B
Length: 101 amino acids
Theoretical weight: 11.29 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P61823 (Residues: 50-150; Coverage: 82%)
Gene names: RNASE1, RNS1
Sequence domains: Pancreatic ribonuclease
Structure domains: Ribonuclease A-like domain

Ligands and Environments

1 bound ligand:
Ligand SO4 1 x SO4
1 modified residue:
Ligand SET 1 x SET

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P3121
Unit cell:
a: 44.84Å b: 44.84Å c: 98Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.189 0.189 0.218
Expression system: Not provided

Quick links

Citations

1 review citation

Forces stabilizing proteins.
Nick Pace et al. (2014)
32 other articles