Protein & Cell

, Volume 1, Issue 5, pp 453–458

Crystal structure of a novel non-Pfam protein PF2046 solved using low resolution B-factor sharpening and multi-crystal averaging methods

  • Jing Su
  • Yang Li
  • Neil Shaw
  • Weihong Zhou
  • Min Zhang
  • Hao Xu
  • Bi-Cheng Wang
  • Zhi-Jie Liu
Communication

DOI: 10.1007/s13238-010-0045-7

Cite this article as:
Su, J., Li, Y., Shaw, N. et al. Protein Cell (2010) 1: 453. doi:10.1007/s13238-010-0045-7

Abstract

Sometimes crystals cannot diffract X-rays beyond 3.0 Å resolution due to the intrinsic flexibility associated with the protein. Low resolution diffraction data not only pose a challenge to structure determination, but also hamper interpretation of mechanistic details. Crystals of a 25.6 kDa non-Pfam, hypothetical protein, PF2046, diffracted X-rays to 3.38 Å resolution. A combination of Se-Met derived heavy atom positions with multiple cycles of B-factor sharpening, multi-crystal averaging, restrained refinement followed by manual inspection of electron density and model building resulted in a final model with a R value of 23.5 (Rfree= 24.7). The asymmetric unit was large and consisted of six molecules arranged as a homodimer of trimers. Analysis of the structure revealed the presence of a RNA binding domain suggesting a role for PF2046 in the processing of nucleic acids.

Keywords

low resolution diffractionPF2046Bfactor sharpeninga homodimer of trimers

Copyright information

© Higher Education Press and Springer-Verlag Berlin Heidelberg 2010

Authors and Affiliations

  • Jing Su
    • 1
  • Yang Li
    • 1
  • Neil Shaw
    • 1
  • Weihong Zhou
    • 2
  • Min Zhang
    • 3
  • Hao Xu
    • 4
  • Bi-Cheng Wang
    • 4
  • Zhi-Jie Liu
    • 1
  1. 1.National Laboratory of Biomacromolecules, Institute of BiophysicsChinese Academy of SciencesBeijingChina
  2. 2.College of Life SciencesNankai UniversityTianjinChina
  3. 3.School of Life SciencesAnhui UniversityHefeiChina
  4. 4.Department of Biochemistry and Molecular BiologyUniversity of GeorgiaAtlantaUSA