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. 2010 Feb 17;98(4):637–645. doi: 10.1016/j.bpj.2009.08.061

Table 1.

Average S2 from NMR spectroscopy and MD

Technique
NMR
MD
Analysis method
MF
relax
M1
M2
Simulation 1 2 3
All residues§ 0.901 0.886 0.854 0.853 0.866 0.853
α-helices 0.921 0.904 0.894 0.899 0.902 0.896
β-strands 0.893 0.877 0.875 0.876 0.890 0.876
Loops∗∗ 0.883 0.869 0.803 0.796 0.819 0.797
Ω loop†† 0.898 0.901 0.705 0.755 0.746 0.748
Converged residues 0.868 0.876 0.874
Unconverged residues‡‡ 0.833 0.820 0.844

Original ModelFree analysis (2).

Internal autocorrelation, individual simulations.

Internal autocorrelation by randomization of all simulations.

§

Except N-terminus (H26) and 12 prolines for MD: 27, 62, 67, 107, 145, 167, 174, 183, 219, 226, 252, and 257. For NMR spectroscopy, this also excludes residues that could not be analyzed and residues whose model-free model does not involve an S2.

There are 12 α-helices in the structure: H1, 26–40; H2A, 69–71; H2B, 72–85; H3, 109–111; H4, 119–128; H5,132–142; H6, 145–154; H7, 168–170; H8, 183–195; H9, 201–212; H10, 221–224; and H11, 272–288.

There are five β-strands (in one sheet) in the structure: S1, 56–60; S2, 43–50; S3, 259–266; S4, 244–251; and S5, 230–237.

∗∗

Including the Ω loop.

††

The Ω loop spans residues 161–179.

‡‡

Fourteen residues are unconverged in all three simulations: E64, S70, V159, T160, L169, N170, N175, D176, E177, R191, L193, L194, L198, and A202.