title: Reduced dimensionality 3D HNCAN for unambiguous HN, CA and N assignment in proteins.
abstract: We present here an improvisation of HNN (Panchal, Bhavesh et al., 2001) called RD 3D HNCAN for backbone (HN, CA and (15)N) assignment in both folded and unfolded proteins. This is a reduced dimensionality experiment which employs CA chemical shifts to improve dispersion. Distinct positive and negative peak patterns of various triplet segments along the polypeptide chain observed in HNN are retained and these provide start and check points for the sequential walk. Because of co-incrementing of CA and (15)N, peaks along one of the dimensions appear at sums and differences of the CA and (15)N chemical shifts. This changes the backbone assignment protocol slightly and we present this in explicit detail. The performance of the experiment has been demonstrated using Ubiquitin and Plasmodium falciparum P2 proteins. The experiment is particularly valuable when two neighboring amino acid residues have nearly identical backbone (15)N chemical shifts.
authors.affiliation: Department of Chemical Sciences, Tata Institute of Fundamental Research (TIFR), Mumbai 400 005, India.
authors.forename: Manoj Kumar
authors.initials: MK
authors.lastname: Rout
authors.forename: Pushpa
authors.initials: P
authors.lastname: Mishra
authors.forename: Hanudatta S
authors.initials: HS
authors.lastname: Atreya
authors.forename: Ramakrishna V
authors.initials: RV
authors.lastname: Hosur
mesh_terms: D000465:Algorithms; D000818:Animals; D005998:Glycine / Q000737:chemistry; D006801:Humans; D006859:Hydrogen / Q000737:chemistry; D009584:Nitrogen / Q000737:chemistry; D019906:Nuclear Magnetic Resonance, Biomolecular / Q000379:methods*; D010963:Plasmodium falciparum / Q000737:chemistry; D011392:Proline / Q000737:chemistry; D011487:Protein Conformation; D017510:Protein Folding; D011506:Proteins / Q000737:chemistry*; D025801:Ubiquitin / Q000737:chemistry
chemical_list: D011506:Proteins; D025801:Ubiquitin; D006859:Hydrogen; D011392:Proline; D009584:Nitrogen; D005998:Glycine