› 2nz4

X-ray diffraction
2.5Å resolution

Structural investigation of the GlmS ribozyme bound to its catalytic cofactor

Released:
DOI: 10.2210/pdb2nz4/pdb
PDB entry 2nz4 coloured by chain, front view.
PDB entry 2nz4 coloured by chain, side view.
PDB entry 2nz4 coloured by chain, top view.
Source organisms:
Primary publication:
Structural investigation of the GlmS ribozyme bound to Its catalytic cofactor.
Cochrane JC, Lipchock SV, Strobel SA
Chem Biol 14 97-105 (2007)
PMID: 17196404

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-140477 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct RNA molecules
Macromolecules (3 distinct):
U1 small nuclear ribonucleoprotein A Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 94 amino acids
Theoretical weight: 10.94 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P09012 (Residues: 5-98; Coverage: 33%)
Gene name: SNRPA
Sequence domains: RNA recognition motif
Structure domains: Alpha-Beta Plaits
substrate strand RNA 13-mer Chains: E, F, G, H
Molecule details ›
Chains: E, F, G, H
Length: 13 nucleotides
Theoretical weight: 4.18 KDa
Source organism: Bacillus anthracis
Expression system: Not provided
GlmS ribozyme Chains: P, Q, R, S
Molecule details ›
Chains: P, Q, R, S
Length: 141 nucleotides
Theoretical weight: 45.62 KDa
Source organism: Bacillus anthracis
Expression system: Not provided
Sequence domains: glmS glucosamine-6-phosphate activated ribozyme

Ligands and Environments

2 bound ligands:
Ligand GLP 4 x GLP
Ligand MG 16 x MG
2 modified residues:
Ligand A2M 4 x A2M
Ligand GTP 4 x GTP

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: P21
Unit cell:
a: 48.127Å b: 234.157Å c: 105.003Å
α: 90° β: 90.65° γ: 90°
R-values:
R R work R free
0.224 0.222 0.269
Expression systems:
  • Escherichia coli BL21
  • Not provided

Quick links

Citations

56 review citations

A decade of riboswitches.
Serganov et al. (2013)
55 more

24 mentions without citation

Chemistry and Biology of Self-Cleaving Ribozymes.
Jimenez et al. (2015)
23 more