Structural barriers of the discrete Hasimoto map applied to protein backbone geometry
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arXiv
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| Natura: | Preprint |
| Pubblicazione: |
2026
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| _version_ | 1866908833788461056 |
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| author | Wang, Yiquan |
| author_facet | Wang, Yiquan |
| contents | Determining the three-dimensional structure of a protein from its amino-acid sequence remains a fundamental problem in biophysics. The discrete Frenet geometry of the C$_α$ backbone can be mapped, via a Hasimoto-type transform, onto a complex scalar field $ψ=κ\,e^{i\sumτ}$ satisfying a discrete nonlinear Schrödinger equation (DNLS), whose soliton solutions reproduce observed secondary-structure motifs. Whether this mapping, which provides an elegant geometric description of folded states, can be extended to a predictive framework for protein folding remains an open question. We derive an exact closed-form decomposition of the DNLS effective potential $V_{\text{eff}}=V_{\text{re}}+iV_{\text{im}}$ in terms of curvature ratios and torsion angles, validating the result to machine precision across 856 non-redundant proteins. Our analysis identifies three structural barriers to forward prediction: (i)~$V_{\text{im}}$ encodes chirality via the odd symmetry of $\sinτ$, accounting for ${\sim}31\%$ of the total information and implying a $2^N$ degeneracy if neglected; (ii)~$V_{\text{re}}$ is determined primarily (${\sim}95\%$) by local geometry, rendering it effectively sequence-agnostic; and (iii)~self-consistent field iterations fail to recover native structures (mean RMSD $= 13.1$\,Å) even with hydrogen-bond terms, yielding torsion correlations indistinguishable from zero. Constructively, we demonstrate that the residual of the DNLS dispersion relation serves as a geometric order parameter for $α$-helices (ROC AUC $= 0.72$), defining them as regions of maximal integrability. These findings establish that the Hasimoto map functions as a kinematic identity rather than a dynamical governing equation, presenting fundamental obstacles to its use as a predictive framework for protein folding. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2602_13160 |
| institution | arXiv |
| publishDate | 2026 |
| record_format | arxiv |
| spellingShingle | Structural barriers of the discrete Hasimoto map applied to protein backbone geometry Wang, Yiquan Biomolecules Mathematical Physics Exactly Solvable and Integrable Systems Determining the three-dimensional structure of a protein from its amino-acid sequence remains a fundamental problem in biophysics. The discrete Frenet geometry of the C$_α$ backbone can be mapped, via a Hasimoto-type transform, onto a complex scalar field $ψ=κ\,e^{i\sumτ}$ satisfying a discrete nonlinear Schrödinger equation (DNLS), whose soliton solutions reproduce observed secondary-structure motifs. Whether this mapping, which provides an elegant geometric description of folded states, can be extended to a predictive framework for protein folding remains an open question. We derive an exact closed-form decomposition of the DNLS effective potential $V_{\text{eff}}=V_{\text{re}}+iV_{\text{im}}$ in terms of curvature ratios and torsion angles, validating the result to machine precision across 856 non-redundant proteins. Our analysis identifies three structural barriers to forward prediction: (i)~$V_{\text{im}}$ encodes chirality via the odd symmetry of $\sinτ$, accounting for ${\sim}31\%$ of the total information and implying a $2^N$ degeneracy if neglected; (ii)~$V_{\text{re}}$ is determined primarily (${\sim}95\%$) by local geometry, rendering it effectively sequence-agnostic; and (iii)~self-consistent field iterations fail to recover native structures (mean RMSD $= 13.1$\,Å) even with hydrogen-bond terms, yielding torsion correlations indistinguishable from zero. Constructively, we demonstrate that the residual of the DNLS dispersion relation serves as a geometric order parameter for $α$-helices (ROC AUC $= 0.72$), defining them as regions of maximal integrability. These findings establish that the Hasimoto map functions as a kinematic identity rather than a dynamical governing equation, presenting fundamental obstacles to its use as a predictive framework for protein folding. |
| title | Structural barriers of the discrete Hasimoto map applied to protein backbone geometry |
| topic | Biomolecules Mathematical Physics Exactly Solvable and Integrable Systems |
| url | https://arxiv.org/abs/2602.13160 |