› 3l3c

X-ray diffraction
2.85Å resolution

Crystal structure of the Bacillus anthracis glmS ribozyme bound to Glc6P

Released:
DOI: 10.2210/pdb3l3c/pdb
PDB entry 3l3c coloured by chain, front view.
PDB entry 3l3c coloured by chain, side view.
PDB entry 3l3c coloured by chain, top view.
Source organisms:
Primary publication:
Structural and chemical basis for glucosamine 6-phosphate binding and activation of the glmS ribozyme.
Cochrane JC, Lipchock SV, Smith KD, Strobel SA
Biochemistry 48 3239-46 (2009)
PMID: 19228039

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-140488 (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: 90 amino acids
Theoretical weight: 10.45 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P09012 (Residues: 7-96; Coverage: 32%)
Gene name: SNRPA
Sequence domains: RNA recognition motif
Structure domains: Alpha-Beta Plaits
RNA (5'-R(*AP*(A2M)*GP*CP*GP*CP*CP*AP*GP*AP*AP*CP*U)-3') 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 MG 16 x MG
Ligand G6P 4 x G6P
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: 47.882Å b: 234.947Å c: 104.54Å
α: 90° β: 90.55° γ: 90°
R-values:
R R work R free
0.265 0.263 0.303
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

15 review citations

Riboswitches and the RNA world.
Breaker RR. (2012)
14 more

9 mentions without citation

Using RNA Sequence and Structure for the Prediction of Riboswitch Aptamer: A Comprehensive Review of Available Software and Tools.
Antunes et al. (2017)
8 more