• determined by X-ray crystallogr
  • Using the Snob program for information-theoretic Minimum Message Length (MML) intrinsic classification, we are able to take the protein dihedral angles as determined by X-ray crystallography, and cluster sets of dihedral angles into groups. (psu.edu)
  • circular dichroism
  • A powerful tool used to monitor secondary structure is circular dichroism (CD), which is the differential absorbance of left and right circularly polarized light. (olisweb.com)
  • The protein secondary structure and pigments' microenvironment in photosystem 1 (PS1) complexes were studied in the temperature range of 25-80 °C using Fourier transform infrared (FT-IR) and circular dichroism (CD) spectroscopy, respectively. (springer.com)
  • abstract
  • Abstract Tricodon regions on messenger RNAs corresponding to a set of proteins from Escherichia coli were scrutinized for their translation speed. (bio.net)
  • Background: Although methods based on highly abstract descriptions of protein structures, such as VAST and TOPS, can perform very fast protein structure comparison, the results can lack a high degree of biological significance. (ebscohost.com)
  • Bayesian
  • Previous work by Hunter and States had applied a similar Bayesian classification method, AutoClass, to protein data with site position represented by 3 Cartesian co-ordinates for each of the α-Carbon, β-Carbon and Nitrogen, totalling 9 co-ordinates. (psu.edu)
  • residue
  • Cysteine on the other hand can react with another cysteine residue and thereby form a cross link stabilizing the whole structure. (wikipedia.org)
  • PANAV uses residue-specific and secondary structure-specific chemical shift distributions that were calculated over short (3-6 residue) fragments of correctly referenced proteins (found in RefDB) to identify mis-assigned resonances. (wikipedia.org)
  • chemical shift
  • Chemical shift referencing is a problem in protein nuclear magnetic resonance as >20% of reported NMR chemical shift assignments appear to be improperly referenced. (wikipedia.org)
  • Chemical shift errors of this magnitue often make it very difficult to compare NMR chemical shift assignments between proteins. (wikipedia.org)
  • Unlike most other chemical shift re-referencing tools PANAV employs a structure-independent protocol. (wikipedia.org)
  • That is, with PANAV there is no need to know the structure of the protein in advance of correcting any chemical shift referencing errors. (wikipedia.org)