Can the propensity of protein crystallization be increased by using systematic screening with metals?

Raghurama P. Hegde, Gowribidanur C. Pavithra, Debayan Dey, Steven C. Almo, S. Ramakumar, Udupi A. Ramagopal

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

Protein crystallization is one of the major bottlenecks in protein structure elucidation with new strategies being constantly developed to improve the chances of crystallization. Generally, well-ordered epitopes possessing complementary surface and capable of producing stable inter-protein interactions generate a regular three-dimensional arrangement of protein molecules which eventually results in a crystal lattice. Metals, when used for crystallization, with their various coordination numbers and geometries, can generate such epitopes mediating protein oligomerization and/or establish crystal contacts. Some examples of metal-mediated oligomerization and crystallization together with our experience on metal-mediated crystallization of a putative rRNA methyltransferase from Sinorhizobium meliloti are presented. Analysis of crystal structures from protein data bank (PDB) using a non-redundant data set with a 90% identity cutoff, reveals that around 67% of proteins contain at least one metal ion, with ∼14% containing combination of metal ions. Interestingly, metal containing conditions in most commercially available and popular crystallization kits generally contain only a single metal ion, with combinations of metals only in a very few conditions. Based on the results presented in this review, it appears that the crystallization screens need expansion with systematic screening of metal ions that could be crucial for stabilizing the protein structure or for establishing crystal contact and thereby aiding protein crystallization.

Original languageEnglish (US)
JournalProtein Science
DOIs
StateAccepted/In press - 2017

Fingerprint

Crystallization
Screening
Metals
Proteins
Metal ions
Ions
Oligomerization
Epitopes
Sinorhizobium meliloti
Crystals
Methyltransferases
Crystal lattices
Crystal structure
Databases
Molecules
Geometry

Keywords

  • Combination of metals in crystallization
  • Crystallization screens
  • Metals in crystallization
  • Protein crystallization

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology

Cite this

Can the propensity of protein crystallization be increased by using systematic screening with metals? / Hegde, Raghurama P.; Pavithra, Gowribidanur C.; Dey, Debayan; Almo, Steven C.; Ramakumar, S.; Ramagopal, Udupi A.

In: Protein Science, 2017.

Research output: Contribution to journalArticle

Hegde, Raghurama P. ; Pavithra, Gowribidanur C. ; Dey, Debayan ; Almo, Steven C. ; Ramakumar, S. ; Ramagopal, Udupi A. / Can the propensity of protein crystallization be increased by using systematic screening with metals?. In: Protein Science. 2017.
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