An Introduction to Molecular Symmetry
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Chirality in the Plane
Chirality in the plane Christian G. B¨ohmer1 and Yongjo Lee2 and Patrizio Neff3 October 15, 2019 Abstract It is well-known that many three-dimensional chiral material models become non-chiral when reduced to two dimensions. Chiral properties of the two-dimensional model can then be restored by adding appropriate two-dimensional chiral terms. In this paper we show how to construct a three-dimensional chiral energy function which can achieve two-dimensional chirality induced already by a chiral three-dimensional model. The key ingredient to this approach is the consideration of a nonlinear chiral energy containing only rotational parts. After formulating an appropriate energy functional, we study the equations of motion and find explicit soliton solutions displaying two-dimensional chiral properties. Keywords: chiral materials, planar models, Cosserat continuum, isotropy, hemitropy, centro- symmetry AMS 2010 subject classification: 74J35, 74A35, 74J30, 74A30 1 Introduction 1.1 Background A group of geometric symmetries which keeps at least one point fixed is called a point group. A point group in d-dimensional Euclidean space is a subgroup of the orthogonal group O(d). Naturally this leads to the distinction of rotations and improper rotations. Centrosymmetry corresponds to a point group which contains an inversion centre as one of its symmetry elements. Chiral symmetry is one example of non-centrosymmetry which is characterised by the fact that a geometric figure cannot be mapped into its mirror image by an element of the Euclidean group, proper rotations SO(d) and translations. This non-superimposability (or chirality) to its mirror image is best illustrated by the left and right hands: there is no way to map the left hand onto the right by simply rotating the left hand in the plane. -
Symmetry of Fulleroids Stanislav Jendrol’, František Kardoš
Symmetry of Fulleroids Stanislav Jendrol’, František Kardoš To cite this version: Stanislav Jendrol’, František Kardoš. Symmetry of Fulleroids. Klaus D. Sattler. Handbook of Nanophysics: Clusters and Fullerenes, CRC Press, pp.28-1 - 28-13, 2010, 9781420075557. hal- 00966781 HAL Id: hal-00966781 https://hal.archives-ouvertes.fr/hal-00966781 Submitted on 27 Mar 2014 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Symmetry of Fulleroids Stanislav Jendrol’ and Frantiˇsek Kardoˇs Institute of Mathematics, Faculty of Science, P. J. Saf´arikˇ University, Koˇsice Jesenn´a5, 041 54 Koˇsice, Slovakia +421 908 175 621; +421 904 321 185 [email protected]; [email protected] Contents 1 Symmetry of Fulleroids 2 1.1 Convexpolyhedraandplanargraphs . .... 3 1.2 Polyhedral symmetries and graph automorphisms . ........ 4 1.3 Pointsymmetrygroups. 5 1.4 Localrestrictions ............................... .. 10 1.5 Symmetryoffullerenes . .. 11 1.6 Icosahedralfulleroids . .... 12 1.7 Subgroups of Ih ................................. 15 1.8 Fulleroids with multi-pentagonal faces . ......... 16 1.9 Fulleroids with octahedral, prismatic, or pyramidal symmetry ........ 19 1.10 (5, 7)-fulleroids .................................. 20 1 Chapter 1 Symmetry of Fulleroids One of the important features of the structure of molecules is the presence of symmetry elements. -
Angle Chasing
Angle Chasing Ray Li June 12, 2017 1 Facts you should know 1. Let ABC be a triangle and extend BC past C to D: Show that \ACD = \BAC + \ABC: 2. Let ABC be a triangle with \C = 90: Show that the circumcenter is the midpoint of AB: 3. Let ABC be a triangle with orthocenter H and feet of the altitudes D; E; F . Prove that H is the incenter of 4DEF . 4. Let ABC be a triangle with orthocenter H and feet of the altitudes D; E; F . Prove (i) that A; E; F; H lie on a circle diameter AH and (ii) that B; E; F; C lie on a circle with diameter BC. 5. Let ABC be a triangle with circumcenter O and orthocenter H: Show that \BAH = \CAO: 6. Let ABC be a triangle with circumcenter O and orthocenter H and let AH and AO meet the circumcircle at D and E, respectively. Show (i) that H and D are symmetric with respect to BC; and (ii) that H and E are symmetric with respect to the midpoint BC: 7. Let ABC be a triangle with altitudes AD; BE; and CF: Let M be the midpoint of side BC. Show that ME and MF are tangent to the circumcircle of AEF: 8. Let ABC be a triangle with incenter I, A-excenter Ia, and D the midpoint of arc BC not containing A on the circumcircle. Show that DI = DIa = DB = DC: 9. Let ABC be a triangle with incenter I and D the midpoint of arc BC not containing A on the circumcircle. -
Proofs with Perpendicular Lines
3.4 Proofs with Perpendicular Lines EEssentialssential QQuestionuestion What conjectures can you make about perpendicular lines? Writing Conjectures Work with a partner. Fold a piece of paper D in half twice. Label points on the two creases, as shown. a. Write a conjecture about AB— and CD — . Justify your conjecture. b. Write a conjecture about AO— and OB — . AOB Justify your conjecture. C Exploring a Segment Bisector Work with a partner. Fold and crease a piece A of paper, as shown. Label the ends of the crease as A and B. a. Fold the paper again so that point A coincides with point B. Crease the paper on that fold. b. Unfold the paper and examine the four angles formed by the two creases. What can you conclude about the four angles? B Writing a Conjecture CONSTRUCTING Work with a partner. VIABLE a. Draw AB — , as shown. A ARGUMENTS b. Draw an arc with center A on each To be prof cient in math, side of AB — . Using the same compass you need to make setting, draw an arc with center B conjectures and build a on each side of AB— . Label the C O D logical progression of intersections of the arcs C and D. statements to explore the c. Draw CD — . Label its intersection truth of your conjectures. — with AB as O. Write a conjecture B about the resulting diagram. Justify your conjecture. CCommunicateommunicate YourYour AnswerAnswer 4. What conjectures can you make about perpendicular lines? 5. In Exploration 3, f nd AO and OB when AB = 4 units. -
Origin of Icosahedral Symmetry in Viruses
Origin of icosahedral symmetry in viruses Roya Zandi†‡, David Reguera†, Robijn F. Bruinsma§, William M. Gelbart†, and Joseph Rudnick§ Departments of †Chemistry and Biochemistry and §Physics and Astronomy, University of California, Los Angeles, CA 90095-1569 Communicated by Howard Reiss, University of California, Los Angeles, CA, August 11, 2004 (received for review February 2, 2004) With few exceptions, the shells (capsids) of sphere-like viruses (11). This problem is in turn related to one posed much earlier have the symmetry of an icosahedron and are composed of coat by Thomson (12), involving the optimal distribution of N proteins (subunits) assembled in special motifs, the T-number mutually repelling points on the surface of a sphere, and to the structures. Although the synthesis of artificial protein cages is a subsequently posed ‘‘covering’’ problem, where one deter- rapidly developing area of materials science, the design criteria for mines the arrangement of N overlapping disks of minimum self-assembled shells that can reproduce the remarkable properties diameter that allow complete coverage of the sphere surface of viral capsids are only beginning to be understood. We present (13). In a similar spirit, a self-assembly phase diagram has been here a minimal model for equilibrium capsid structure, introducing formulated for adhering hard disks (14). These models, which an explicit interaction between protein multimers (capsomers). all deal with identical capsomers, regularly produced capsid Using Monte Carlo simulation we show that the model reproduces symmetries lower than icosahedral. On the other hand, theo- the main structures of viruses in vivo (T-number icosahedra) and retical studies of viral assembly that assume icosahedral sym- important nonicosahedral structures (with octahedral and cubic metry are able to reproduce the CK motifs (15), and, most symmetry) observed in vitro. -
Symmetry and Tensors Rotations and Tensors
Symmetry and tensors Rotations and tensors A rotation of a 3-vector is accomplished by an orthogonal transformation. Represented as a matrix, A, we replace each vector, v, by a rotated vector, v0, given by multiplying by A, 0 v = Av In index notation, 0 X vm = Amnvn n Since a rotation must preserve lengths of vectors, we require 02 X 0 0 X 2 v = vmvm = vmvm = v m m Therefore, X X 0 0 vmvm = vmvm m m ! ! X X X = Amnvn Amkvk m n k ! X X = AmnAmk vnvk k;n m Since xn is arbitrary, this is true if and only if X AmnAmk = δnk m t which we can rewrite using the transpose, Amn = Anm, as X t AnmAmk = δnk m In matrix notation, this is t A A = I where I is the identity matrix. This is equivalent to At = A−1. Multi-index objects such as matrices, Mmn, or the Levi-Civita tensor, "ijk, have definite transformation properties under rotations. We call an object a (rotational) tensor if each index transforms in the same way as a vector. An object with no indices, that is, a function, does not transform at all and is called a scalar. 0 A matrix Mmn is a (second rank) tensor if and only if, when we rotate vectors v to v , its new components are given by 0 X Mmn = AmjAnkMjk jk This is what we expect if we imagine Mmn to be built out of vectors as Mmn = umvn, for example. In the same way, we see that the Levi-Civita tensor transforms as 0 X "ijk = AilAjmAkn"lmn lmn 1 Recall that "ijk, because it is totally antisymmetric, is completely determined by only one of its components, say, "123. -
Molecular Symmetry, Super-Rotation, and Semi-Classical Motion –
Molecular symmetry, super-rotation, and semi-classical motion – New ideas for old problems Inaugural - Dissertation zur Erlangung des Doktorgrades der Mathematisch-Naturwissenschaftlichen Fakultät der Universität zu Köln vorgelegt von Hanno Schmiedt aus Köln Berichterstatter: Prof. Dr. Stephan Schlemmer Prof. Per Jensen, Ph.D. Tag der mündlichen Prüfung: 24. Januar 2017 Awesome molecules need awesome theories DR.SANDRA BRUENKEN, 2016 − Abstract Traditional molecular spectroscopy is used to characterize molecules by their structural and dynamical properties. Furthermore, modern experimental methods are capable of determining state-dependent chemical reaction rates. The understanding of both inter- and intra-molecular dynamics contributes exceptionally, for example, to the search for molecules in interstellar space, where observed spectra and reaction rates help in under- standing the various phases of stellar or planetary evolution. Customary theoretical models for molecular dynamics are based on a few fundamental assumptions like the commonly known ball-and-stick picture of molecular structure. In this work we discuss two examples of the limits of conventional molecular theory: Extremely floppy molecules where no equilibrium geometric structure is definable and molecules exhibiting highly excited rotational states, where the large angular momentum poses considerable challenges to quantum chemical calculations. In both cases, we develop new concepts based on fundamental symmetry considerations to overcome the respective limits of quantum chemistry. For extremely floppy molecules where numerous large-amplitude motions render a defini- tion of a fixed geometric structure impossible, we establish a fundamentally new zero-order description. The ‘super-rotor model’ is based on a five-dimensional rigid rotor treatment depending only on a single adjustable parameter. -
Properties of the Single and Double D4d Groups and Their Isomorphisms with D8 and C8v Groups A
Properties of the single and double D4d groups and their isomorphisms with D8 and C8v groups A. Le Paillier-Malécot, L. Couture To cite this version: A. Le Paillier-Malécot, L. Couture. Properties of the single and double D4d groups and their isomorphisms with D8 and C8v groups. Journal de Physique, 1981, 42 (11), pp.1545-1552. 10.1051/jphys:0198100420110154500. jpa-00209347 HAL Id: jpa-00209347 https://hal.archives-ouvertes.fr/jpa-00209347 Submitted on 1 Jan 1981 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. J. Physique 42 (1981) 1545-1552 NOVEMBRE 1981, 1545 Classification Physics Abstracts 75.10D Properties of the single and double D4d groups and their isomorphisms with D8 and C8v groups A. Le Paillier-Malécot Laboratoire de Magnétisme et d’Optique des Solides, 1, place A.-Briand, 92190 Meudon Bellevue, France and Université de Paris-Sud XI, Centre d’Orsay, 91405 Orsay Cedex, France and L. Couture Laboratoire Aimé-Cotton (*), C.N.R.S., Campus d’Orsay, 91405 Orsay Cedex, France and Laboratoire d’Optique et de Spectroscopie Cristalline, Université Pierre-et-Marie-Curie, Paris VI, 75230 Paris Cedex 05, France (Reçu le 15 mai 1981, accepté le 9 juillet 1981) Résumé. -
Molecular Symmetry
Molecular Symmetry Symmetry helps us understand molecular structure, some chemical properties, and characteristics of physical properties (spectroscopy) – used with group theory to predict vibrational spectra for the identification of molecular shape, and as a tool for understanding electronic structure and bonding. Symmetrical : implies the species possesses a number of indistinguishable configurations. 1 Group Theory : mathematical treatment of symmetry. symmetry operation – an operation performed on an object which leaves it in a configuration that is indistinguishable from, and superimposable on, the original configuration. symmetry elements – the points, lines, or planes to which a symmetry operation is carried out. Element Operation Symbol Identity Identity E Symmetry plane Reflection in the plane σ Inversion center Inversion of a point x,y,z to -x,-y,-z i Proper axis Rotation by (360/n)° Cn 1. Rotation by (360/n)° Improper axis S 2. Reflection in plane perpendicular to rotation axis n Proper axes of rotation (C n) Rotation with respect to a line (axis of rotation). •Cn is a rotation of (360/n)°. •C2 = 180° rotation, C 3 = 120° rotation, C 4 = 90° rotation, C 5 = 72° rotation, C 6 = 60° rotation… •Each rotation brings you to an indistinguishable state from the original. However, rotation by 90° about the same axis does not give back the identical molecule. XeF 4 is square planar. Therefore H 2O does NOT possess It has four different C 2 axes. a C 4 symmetry axis. A C 4 axis out of the page is called the principle axis because it has the largest n . By convention, the principle axis is in the z-direction 2 3 Reflection through a planes of symmetry (mirror plane) If reflection of all parts of a molecule through a plane produced an indistinguishable configuration, the symmetry element is called a mirror plane or plane of symmetry . -
Arxiv:1910.10745V1 [Cond-Mat.Str-El] 23 Oct 2019 2.2 Symmetry-Protected Time Crystals
A Brief History of Time Crystals Vedika Khemania,b,∗, Roderich Moessnerc, S. L. Sondhid aDepartment of Physics, Harvard University, Cambridge, Massachusetts 02138, USA bDepartment of Physics, Stanford University, Stanford, California 94305, USA cMax-Planck-Institut f¨urPhysik komplexer Systeme, 01187 Dresden, Germany dDepartment of Physics, Princeton University, Princeton, New Jersey 08544, USA Abstract The idea of breaking time-translation symmetry has fascinated humanity at least since ancient proposals of the per- petuum mobile. Unlike the breaking of other symmetries, such as spatial translation in a crystal or spin rotation in a magnet, time translation symmetry breaking (TTSB) has been tantalisingly elusive. We review this history up to recent developments which have shown that discrete TTSB does takes place in periodically driven (Floquet) systems in the presence of many-body localization (MBL). Such Floquet time-crystals represent a new paradigm in quantum statistical mechanics — that of an intrinsically out-of-equilibrium many-body phase of matter with no equilibrium counterpart. We include a compendium of the necessary background on the statistical mechanics of phase structure in many- body systems, before specializing to a detailed discussion of the nature, and diagnostics, of TTSB. In particular, we provide precise definitions that formalize the notion of a time-crystal as a stable, macroscopic, conservative clock — explaining both the need for a many-body system in the infinite volume limit, and for a lack of net energy absorption or dissipation. Our discussion emphasizes that TTSB in a time-crystal is accompanied by the breaking of a spatial symmetry — so that time-crystals exhibit a novel form of spatiotemporal order. -
The Cubic Groups
The Cubic Groups Baccalaureate Thesis in Electrical Engineering Author: Supervisor: Sana Zunic Dr. Wolfgang Herfort 0627758 Vienna University of Technology May 13, 2010 Contents 1 Concepts from Algebra 4 1.1 Groups . 4 1.2 Subgroups . 4 1.3 Actions . 5 2 Concepts from Crystallography 6 2.1 Space Groups and their Classification . 6 2.2 Motions in R3 ............................. 8 2.3 Cubic Lattices . 9 2.4 Space Groups with a Cubic Lattice . 10 3 The Octahedral Symmetry Groups 11 3.1 The Elements of O and Oh ..................... 11 3.2 A Presentation of Oh ......................... 14 3.3 The Subgroups of Oh ......................... 14 2 Abstract After introducing basics from (mathematical) crystallography we turn to the description of the octahedral symmetry groups { the symmetry group(s) of a cube. Preface The intention of this account is to provide a description of the octahedral sym- metry groups { symmetry group(s) of the cube. We first give the basic idea (without proofs) of mathematical crystallography, namely that the 219 space groups correspond to the 7 crystal systems. After this we come to describing cubic lattices { such ones that are built from \cubic cells". Finally, among the cubic lattices, we discuss briefly the ones on which O and Oh act. After this we provide lists of the elements and the subgroups of Oh. A presentation of Oh in terms of generators and relations { using the Dynkin diagram B3 is also given. It is our hope that this account is accessible to both { the mathematician and the engineer. The picture on the title page reflects Ha¨uy'sidea of crystal structure [4]. -
Chirality and Projective Linear Groups
DISCRETE MATHEMATICS Discrete Mathematics 131 (1994) 221-261 Chirality and projective linear groups Egon Schultea,l, Asia IviC Weissb**,’ “Depurtment qf Mathematics, Northeastern Uniwrsity, Boston, MA 02115, USA bDepartment qf Mathematics and Statistics, York University, North York, Ontario, M3JIP3, Camda Received 24 October 1991; revised 14 September 1992 Abstract In recent years the term ‘chiral’ has been used for geometric and combinatorial figures which are symmetrical by rotation but not by reflection. The correspondence of groups and polytopes is used to construct infinite series of chiral and regular polytopes whose facets or vertex-figures are chiral or regular toroidal maps. In particular, the groups PSL,(Z,) are used to construct chiral polytopes, while PSL,(Z,[I]) and PSL,(Z,[w]) are used to construct regular polytopes. 1. Introduction Abstract polytopes are combinatorial structures that generalize the classical poly- topes. We are particularly interested in those that possess a high degree of symmetry. In this section, we briefly outline some definitions and basic results from the theory of abstract polytopes. For details we refer to [9,22,25,27]. An (abstract) polytope 9 ofrank n, or an n-polytope, is a partially ordered set with a strictly monotone rank function rank( .) with range { - 1, 0, . , n}. The elements of 9 with rankj are called j-faces of 8. The maximal chains (totally ordered subsets) of .P are calledJags. We require that 6P have a smallest (- 1)-face F_ 1, a greatest n-face F,, and that each flag contains exactly n+2 faces. Furthermore, we require that .Y be strongly flag-connected and that .P have the following homogeneity property: when- ever F<G, rank(F)=j- 1 and rank(G)=j+l, then there are exactly two j-faces H with FcH-cG.