5CI1: Ribonucleotide reductase Y122 2,3-F2Y variant

Fluorinated tyrosines (FnY's, n = 2 and 3) have been site-specifically incorporated into E. coli class Ia ribonucleotide reductase (RNR) using the recently evolved M. jannaschii Y-tRNA synthetase/tRNA pair. Class Ia RNRs require four redox active Y's, a stable Y radical (Y.) in the beta subunit (position 122 in E. coli), and three transiently oxidized Y's (356 in beta and 731 and 730 in alpha) to initiate the radical-dependent nucleotide reduction process. FnY (3,5; 2,3; 2,3,5; and 2,3,6) incorporation in place of Y122-beta and the X-ray structures of each resulting beta with a diferric cluster are reported and compared with wt-beta2 crystallized under the same conditions. The essential diferric-FnY. cofactor is self-assembled from apo FnY-beta2, Fe(2+), and O2 to produce approximately 1 Y./beta2 and approximately 3 Fe(3+)/beta2. The FnY. are stable and active in nucleotide reduction with activities that vary from 5% to 85% that of wt-beta2. Each FnY.-beta2 has been characterized by 9 and 130 GHz electron paramagnetic resonance and high-field electron nuclear double resonance spectroscopies. The hyperfine interactions associated with the (19)F nucleus provide unique signatures of each FnY. that are readily distinguishable from unlabeled Y.'s. The variability of the abiotic FnY pKa's (6.4 to 7.8) and reduction potentials (-30 to +130 mV relative to Y at pH 7.5) provide probes of enzymatic reactions proposed to involve Y.'s in catalysis and to investigate the importance and identity of hopping Y.'s within redox active proteins proposed to protect them from uncoupled radical chemistry.
PDB ID: 5CI1Download
MMDB ID: 140212
PDB Deposition Date: 2015/7/10
Updated in MMDB: 2017/10
Experimental Method:
x-ray diffraction
Resolution: 1.95  Å
Source Organism:
Similar Structures:
Biological Unit for 5CI1: dimeric; determined by author and by software (PISA)
Molecular Components in 5CI1
Label Count Molecule
Proteins (2 molecules)
Ribonucleoside-diphosphate Reductase 1, Beta Subunit, Ferritin-like Protein
Molecule annotation
Chemicals (11 molecules)
* Click molecule labels to explore molecular sequence information.

Citing MMDB