The Kauffman bracket skein module of bonded knots and applications to entangled proteins

Gabrovšek, Boštjan (avtor), Simonič, Matic (avtor)

We model proteins with intramolecular bonds, such as disulfide bridges, using the concept of bonded knots-closed loops in three-dimensional space equipped with additional bonds that connect different segments of the knot. We extend the Kauffman bracket polynomial (which is closely related to the Jones polynomial) to bonded knots through the introduction of the bonded version of the Kauffman bracket skein module. We show that this module is infinitely generated and torsion-free for both the rigid and topological case of bonded knots. In the rigid case, evaluating a bonded knot in the basis of this module yields an bonded knot invariant closely related to the APS bracket and the Simplified RNA polynomial.

• Jezik: Angleški jezik
• Ključne besede: bonded knots, Kauffman bracket, protein knots, skein modules
• Vrsta gradiva: Članek v reviji
• Tipologija: 1.01 - Izvirni znanstveni članek
• Organizacija: PEF - Pedagoška fakulteta; FMF - Fakulteta za matematiko in fiziko ; FS - Fakulteta za strojništvo
• Status publikacije: Objavljeno
• Različica publikacije: Objavljena publikacija
• Leto izida: 2025
• Št. strani: 16 str.
• Številčenje: Vol. 155, iss. 5, art. e70123
• PID: 20.500.12556/RUL-175820
• UDK: 515.1
• ISSN pri članku: 0022-2526
• DOI: 10.1111/sapm.70123
• COBISS.SI-ID: 256501763
• Datum objave v RUL: 10.11.2025

Gradivo je del revije

• Naslov: Studies in applied mathematics
• Skrajšan naslov: Stud. appl. math.
• Založnik: Wiley
• ISSN: 0022-2526
• COBISS.SI-ID: 26469376

Licence

• Licenca: CC BY 4.0, Creative Commons Priznanje avtorstva 4.0 Mednarodna
• Povezava: http://creativecommons.org/licenses/by/4.0/deed.sl
• Opis: To je standardna licenca Creative Commons, ki daje uporabnikom največ možnosti za nadaljnjo uporabo dela, pri čemer morajo navesti avtorja.