› 1vd1

X-ray diffraction
1.8Å resolution

Crystal structure of RNase NT in complex with 5'-AMP

Released:
DOI: 10.2210/pdb1vd1/pdb
PDB entry 1vd1 coloured by chain, front view.
PDB entry 1vd1 coloured by chain, side view.
PDB entry 1vd1 coloured by chain, top view.
Source organism: Nicotiana glutinosa
Entry authors: Kawano S, Kakuta Y, Kimura M

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193525 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribonuclease NGR3 Chain: A
Molecule details ›
Chain: A
Length: 217 amino acids
Theoretical weight: 25 KDa
Source organism: Nicotiana glutinosa
Expression system: Komagataella pastoris
UniProt:
  • Canonical: Q9SSV1 (Residues: 24-236; Coverage: 100%)
Gene names: NGR3, ngr3
Sequence domains: Ribonuclease T2 family
Structure domains: Ribonuclease T2-like

Ligands and Environments

1 bound ligand:
Ligand AMP 2 x AMP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL38B1
Spacegroup: P212121
Unit cell:
a: 37.289Å b: 69.787Å c: 73.748Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.226 0.226 0.262
Expression system: Komagataella pastoris

Quick links