Literature DB >> 27853820

Antiparallel d-stable traces and a stronger version of ore problem.

Jernej Rus1.   

Abstract

In 2013 a novel self-assembly strategy for polypeptide nanostructure design which could lead to significant developments in biotechnology was presented in Gradišar et al. (Nat Chem Bio 9:362-366, 2013). It was since observed that a polyhedron P can be realized by interlocking pairs of polypeptide chains if its corresponding graph G(P) admits a strong trace. It was since also demonstrated that a similar strategy can also be expanded to self-assembly of designed DNA (Kočar, Nat commun 7:1-8, 2016). In this direction, in the present paper we characterize graphs which admit closed walk which traverses every edge exactly once in each direction and for every vertex v, there is no subset N of its neighbors, with [Formula: see text], such that every time the walk enters v from N, it also exits to a vertex in N. This extends Thomassen's characterization (Thomassen, J Combin Theory Ser B 50:198-207, 1990) for the case [Formula: see text].

Keywords:  Double trace; Polypeptide nanostructure; Self-assembling; Single face embedding; Spanning tree; Strands of DNA; Strong trace; d-stable trace

Mesh:

Substances:

Year:  2016        PMID: 27853820     DOI: 10.1007/s00285-016-1077-2

Source DB:  PubMed          Journal:  J Math Biol        ISSN: 0303-6812            Impact factor:   2.259


  12 in total

Review 1.  At the crossroads of chemistry, biology, and materials: structural DNA nanotechnology.

Authors:  Nadrian C Seeman
Journal:  Chem Biol       Date:  2003-12

2.  The single-step synthesis of a DNA tetrahedron.

Authors:  Russell P Goodman; Richard M Berry; Andrew J Turberfield
Journal:  Chem Commun (Camb)       Date:  2004-05-20       Impact factor: 6.222

3.  Synthesis from DNA of a molecule with the connectivity of a cube.

Authors:  J H Chen; N C Seeman
Journal:  Nature       Date:  1991-04-18       Impact factor: 49.962

4.  Icosahedral DNA nanocapsules by modular assembly.

Authors:  Dhiraj Bhatia; Shabana Mehtab; Ramya Krishnan; Shantinath S Indi; Atanu Basu; Yamuna Krishnan
Journal:  Angew Chem Int Ed Engl       Date:  2009       Impact factor: 15.336

5.  Symmetry controls the face geometry of DNA polyhedra.

Authors:  Chuan Zhang; Seung Hyeon Ko; Min Su; Yujun Leng; Alexander E Ribbe; Wen Jiang; Chengde Mao
Journal:  J Am Chem Soc       Date:  2009-02-04       Impact factor: 15.419

6.  Self-assembly of a DNA dodecahedron from 20 trisoligonucleotides with C(3h) linkers.

Authors:  Jan Zimmermann; Martin P J Cebulla; Sven Mönninghoff; Günter von Kiedrowski
Journal:  Angew Chem Int Ed Engl       Date:  2008       Impact factor: 15.336

7.  De novo design of orthogonal peptide pairs forming parallel coiled-coil heterodimers.

Authors:  Helena Gradišar; Roman Jerala
Journal:  J Pept Sci       Date:  2010-12-28       Impact factor: 1.905

8.  Hierarchical self-assembly of DNA into symmetric supramolecular polyhedra.

Authors:  Yu He; Tao Ye; Min Su; Chuan Zhang; Alexander E Ribbe; Wen Jiang; Chengde Mao
Journal:  Nature       Date:  2008-03-13       Impact factor: 49.962

9.  A 1.7-kilobase single-stranded DNA that folds into a nanoscale octahedron.

Authors:  William M Shih; Joel D Quispe; Gerald F Joyce
Journal:  Nature       Date:  2004-02-12       Impact factor: 49.962

10.  Self-assembly of DNA into nanoscale three-dimensional shapes.

Authors:  Shawn M Douglas; Hendrik Dietz; Tim Liedl; Björn Högberg; Franziska Graf; William M Shih
Journal:  Nature       Date:  2009-05-21       Impact factor: 49.962

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