The Silk I and Lamella Structures of (Ala-Gly)15 as the Model of Bombyx mori Silk Fibroin Studied with Solid State NMR

Chain-Folded Lamellar Stacking Structure of the Crystalline Fraction of Bombyx mori Silk Fibroin with Silk II Form Studied by 2D 13C-13C Homonuclear Correlation NMR Spectroscopy

The structure of Bombyx mori silk fibroin (SF) is a subject of significant interest due to its remarkable physical properties; however, its atomic-level structure is still not conclusive. We previously proposed a lamellar stacking structure for the crystalline fraction (Cp) with β-turns occurring every eighth amino acid. In this study, we took the following steps: At first, a model of the chain-folded lamellar stacking structure in antipolar and antiparallel β-sheet layers was constructed. Then, dipolar-assisted rotational resonance solid-state NMR spectra were observed to determine the effective internuclear distance (rj,keff) for the uniformly 13C-labeled Cp fraction sample. By comparing the experimentally obtained rj,keff (obs) values with the calculated rj,keff (calc) values from our structural model, a fairly good correlation between the observed and calculated values of the internuclear distances was obtained with a standard deviation of 0.37 Å. This supports the existence of the chain-folded lamellar stacking structure in the SF fiber. These findings contribute to our understanding of the atomic-level structure of SF and its exceptional properties.

Stretching-Induced Conformational Transition of [3-13C]Ser- and [3-13C]Tyr-Antheraea yamamai Silk Fibroin before Spinning Investigated with 13C Solid-State NMR Spectroscopy

The conformational transition of [3-¹³C]Ser- and [3-¹³C]Tyr-Antheraea yamamai silk fibroin before spinning induced by stretching was investigated with ¹³C CP/MAS NMR spectroscopy. The α-helix content of the silk fibroin before stretching was found to be 31.6% based on the Ala and Ser peaks. With increasing stretching ratio, the α-helix and the random coil Ala Cβ peaks decreased gradually, while the β-sheet peak was observed at a stretching ratio of ×5 and increased rapidly upon further stretching. For Ser residue, the α-helix peak decreased monotonically with increasing stretching ratio, but the random coil peak increased slightly till the stretching ratio of ×5 and then decreased. A small β-sheet peak was observed before stretching and then increased rapidly starting from the stretching ratio of ×7. In contrast, a gradual decrease of random coil peak and an increase of β-sheet peak were observed for the Tyr residue. The results of this investigation may be helpful for further studies of fiber formation mechanism in A. yamamai and in the future design of artificial silk materials.

Lamellar Structure in Alanine-Glycine Copolypeptides Studied by Solid-State NMR Spectroscopy: A Model for the Crystalline Domain of Bombyx mori Silk Fibroin in Silk II Form

Bombyx mori silk fibroin (SF) fibers with excellent mechanical properties have attracted widespread attention as new biomaterials. However, the structural details are still not conclusive. Here, we propose a lamellar structure for the crystalline domain of the SF fiber based on structural analyses of the Ala Cβ peaks in the ¹³C cross-polarization/magic angle spinning NMR spectra of (Ala-Gly)_m (m = 9, 12, 15, and 25) and ¹³C selectively labeled (Ala-Gly)₁₅ model peptides. Namely, three Ala Cβ peaks with relative intensities of 1:2:1 obtained by deconvolution were assigned to two kinds of β-sheet and a β-turn, which are interpreted as a lamellar structure formed by repetitive folding using β-turns every eighth amino acid, for which the basic structure is (Ala-Gly)₄ in an antipolar arrangement. The dynamics and intermolecular arrangement were further studied using ¹³C solid-state spin-lattice relaxation time observations and the rotational echo double resonance experiments, respectively.

Toward Understanding the Silk Fiber Structure: 13C Solid-State NMR Studies of the Packing Structures of Alanine Oligomers before and after Trifluoroacetic Acid Treatment

Polyalanine (poly-A) sequences with tightly packed antiparallel β sheet (AP-β) structures are frequently observed in silk fibers and serve as a key contributor to the exceptionally high-fiber tensile strength. In general, the poly-A sequence embedded in the amorphous glycine-rich regions has different lengths depending on the fiber type from spiders or wild silkworms. In this paper, the packing structures of AP-β alanine oligomers with different lengths were studied using ¹³C solid-state NMR as a model of the poly-A sequences. These included alanine oligomers with and without the protection groups (i.e., 9-fluorenylmethoxycarbonyl and polyethylene glycol groups at the N- and C-terminals, respectively). The fractions of the packing structures as well as the conformations were determined by deconvolution analyses of the methyl NMR peaks. Trifluoroacetic acid was used to promote the staggered packing structures, and the line shapes changed significantly for oligomers without the protected groups but only slightly for oligomers with the protected groups. Through NMR analysis of the 3-¹³C singly labeled alanine heptamer and refined crystal structure of the staggered packing units, a possible mechanism of the staggered packing formation is proposed for the AP-β alanine heptamer.

Structural Analyses of Alanine Trimer and Tetramer Crystals with Antiparallel and Parallel β-Sheet Structures Using Solid-State 1H Spin-Diffusion 2D Correlation NMR Spectroscopy

Poly-l-alanine (PLA) sequences are key elements of the crystalline domains of spider dragline and wild silkworm silks. In the present work, ¹H spin-diffusion two-dimensional (2D) correlation NMR spectra were observed for selectively deuterated (Ala)₃ and (Ala)₄ crystals to develop the analytical method for the structure of PLA sequences. The build-up curves of the cross peaks for three kinds of ¹H pairs in selectively deuterated (Ala)₃ and (Ala)₄ crystals were observed to obtain spin-diffusion rate constant k _{j, k} from relaxation master equations P _{i, j}(τ_m). The k _{j, k} values subsequently lead to effective interproton distance r _{j, k}^eff (obs) values for individual proton-proton pairs, which include intra- and intermolecular contributions. The r _{j, k}^eff (obs) values were compared to r _{j, k}^eff (calc) values obtained from the experimentally determined atomic coordinates of antiparallel (AP) β-sheet (Ala)₃ and (Ala)₄ and parallel (P) β-sheet of (Ala)₃ and (Ala)₄ crystals. The agreement between the r _{j, k}^eff (obs) and r _{j, k}^eff (calc) values was good for AP β-sheet (Ala)₃ and (Ala)₄ crystals but poor for P β-sheet (Ala)₃ and (Ala)₄ crystals. These deviations were obtained from the interproton distances of the interchain contributions due to different packing arrangements. The packing arrangements of the PLA region are important when considering the relevant structure and the mechanical properties of silks.

Quantitative Analysis of Solid-State Homonuclear Correlation Spectra of Antiparallel β-Sheet Alanine Tetramers

Poly-l-alanine (PLA) sequences are a key element in the structure of the crystalline domains of spider dragline silks, wild silkworm silks, antifreeze proteins, and amyloids. To date, no atomic-level structures of antiparallel (AP)-PLA longer than Ala₄ have been reported using the single-crystal X-ray diffraction analysis. In this work, dipolar-assisted rotational resonance solid-state NMR spectra were observed to determine the effective internuclear distances of ¹³C uniformly labeled alanine tetramer with antiparallel (AP) β-sheet structure whose atomic coordinates are determined from the X-ray crystallographic analysis. Initial build-up rates, R _{j, k}, were obtained from the build-up curves of the cross peaks by considering the internuclear distances arising in the master equation. Subsequently, experimentally obtained effective internuclear distances, r^eff_{j, k}(obs), were compared with the calculated r^eff_{j, k}(calc) values obtained from the X-ray crystallographic data. Fairly good correlation between r^eff_{j, k}(obs) and r^eff_{j, k}(calc) was obtained in the range of 1.0-6.0 Å, with the standard deviation of 0.244 Å, without considering the zero-quantum line-shape functions. It was further noted that the internuclear distances of intermolecular contributions provide details relating to the molecular packing in solid-state samples. Thus, the present data agree well with AP-β-sheet packing but do not agree with P-β-sheet packing.

Effect of Water on the Structure and Dynamics of Regenerated [3-13C] Ser, [3-13C] , and [3-13C] Ala-Bombyx mori Silk Fibroin Studied with 13C Solid-State Nuclear Magnetic Resonance

The effects of water on the structure and dynamics of natural and regenerated silk fibroin (SF) samples were studied using ¹³C solid-state nuclear magnetic resonance (NMR) spectroscopy. We prepared different types of SF materials, sponges, and fibers with different preparation methods and compared their NMR spectra in the dry and hydrated states. Three kinds of ¹³C NMR techniques, r-INEPT, CP/MAS, and DD/MAS, coupled with ¹³C isotope labeling of Ser, Tyr, and Ala residues were used. In the hydrated sponges, several conformations, that is, Silk I* and two kinds of β-sheets, A and B, random coil, and highly mobile hydrated random coil were observed, and the fractions were determined. The fractions were remarkably different among the three sponges but with only small differences among the regenerated and native fibers. The increase in the fraction of β-sheet B might be one of the structural factors for preparing stronger regenerated SF fiber.

Influence factors analysis on the formation of silk I structure

Regenerated silk fibroin aqueous solution was used to study the crystalline structure of Bombyx mori silk fibroin in vitro. By controlling environmental conditions and concentration of silk fibroin solution, it provided a means for the direct preparing silk I structure and understanding the details of silk fibroin molecules interactions in formation process. In this study, silk fibroin molecules were assembled to form random coil at low concentration of solution and then, as the concentration increases, were converted to silk I at 55% relative humidity (RH). At the same time, the structure of silk fibroin forming below 45 °C was mostly in silk I. A partial ternary phase diagram of temperature-humidity-concentration was constructed based on the results. The results showed silk I structure could be controlled by adjusting the external environmental conditions. The enhanced control over silk I structure, as embodied in phase diagram, could potentially be utilized to understand the molecular chain conformation of silk I in further research work.