Self-consistency analysis of dipolar couplings in multiple alignments of ubiquitin.
A self-consistency analysis of backbone N-H residual dipolar couplings of ubiquitin collected in 10 different media is described to assess the degree of structural and dynamic heterogeneous behavior across the media. The SECONDA method, which works with and without any structural or dynamic information about the molecular system, is based on a principal component analysis and is very sensitive to the presence of heterogeneities or experimental errors. It is found that the regular secondary structural elements behave highly homogeneously, while small heterogeneities are manifested in the loop region 51-63. Many residues that exhibit increased dynamics in NMR relaxation experiments are inert with respect to changes in the alignment.
Carlson School of Chemistry and Biochemistry, Clark University, Worcester, Massachusetts, USA.
Jean-Christophe
JC
Hus
Wolfgang
W
Peti
Christian
C
Griesinger
Rafael
R
Brüschweiler
D008958:Models, Molecular; D019906:Nuclear Magnetic Resonance, Biomolecular / Q000379:methods*; D011487:Protein Conformation; D025801:Ubiquitin / Q000737:chemistry*
D025801:Ubiquitin