Strip-plot

A section of the strip plot (residues 15-31) taken from the 3D TOCSY-HSQC spectrum is shown in Figure 12.54. Each strip is taken from the nearest F2 (15N) plane to the backbone... 

Strip plots can only be constructed when the crosspeaks have already been assigned in the 2D HSQC spectrum. In a 15N-labeled protein, sequence-specific assignments come from sequential NOE (a,N, /3,N and N,N) crosspeaks located in the 3D HSQC-NOESY spectrum. The walk through the protein backbone is done in the same way as with unlabeled proteins, except that overlap in NOESY spectra is greatly reduced by spreading the crosspeaks out in the 15N dimension of a 3D spectrum. 

The 3D HNCO data matrix is very sparsely populated with crosspeaks because there is only one correlation per residue in the protein (Fig. 12.59). The main purpose of this experiment is to count residues and make sure all of the peaks can be found and identified. Once we have the assignments for each H-N pair, the data can be arranged in a strip plot in order of residue number. 

Once we have sequence-specific assignments, the strips from the HNCACB matrix can be arranged in order of residue number. Figure 12.69 (right) shows the strip plot for A-Cro... 

Figure 3. Strip plot of 3D N-edited NOESY of apoLp-III showing NH-NH walking strategy for residues 50 - 59.

Lansky D. Strip-plot designs, mixed models, and comparisons between linear and non-linear models for microtitre plate bioassays. In Brown W, Mire-Sluis AR, eds. The Design and Analysis of Potency Assays for Biotechnology Products. Dev Biol. Basel Karger, 2002 107 11—23. 

Fig. 31. Strip plot of the three-dimensional NOESY- N/H-HSQC spectra for residues E7 to S17 of the CaM/C20W complex. Dashed lines indicate sequential NOEs between residues.

The strip block also known as split block design, strip plot design, two-way whole plot design and... 

The MSSP design is an extension of the split plot design and can be thought of as having a single whole plot and a subsequent series of sub-plots [50]. The structure of the series of sub-plots can be split plot structure or strip plot structure based on the nature of experimentation. 

Bisgaard and Vivacqua (2004) [51], Acharya and Nembhard (2008) [50] as weU as Yuangyai and Nembhard (2007) [48] suggest applying the split plot, strip plot and combination of split plot and strip plot structures to the multiple stage experiment. The MSSP design will considerably decrease the number of settings in experimentations. 

Figure 5.18 Performance of triple-rank correlation method with moment filtering for antamanide. For the two overlapping HR resonances of Pro3 (red (gray in print version)) and Phe5 (black), (C and D) show 2D HSQC and TOCSY (tm 90 ms) strip plots (A and B) show 3D FT strip plots at constant frequency (E and F) show 3R planes before filtering and (G and H) show those after filtering. Peak cross-sections in (C) and (D) demonstrate differential line positions and line widths that permit identification of false peaks in (E) and (F) and their successful suppression in (G) and (H) based on moment filtering. Reprinted with Permission from Bingo et al. [15]. Copyright 2010 American Chemical Society.

---