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Textbook Engineering Crystallography From Molecule To Crystal To Functional Form 1St Edition Prof DR Kevin J Roberts Ebook All Chapter PDF
Textbook Engineering Crystallography From Molecule To Crystal To Functional Form 1St Edition Prof DR Kevin J Roberts Ebook All Chapter PDF
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NATO Science for Peace and Security Series - A:
Chemistry and Biology
Engineering
Crystallography: From
Molecule to
Crystal to Functional Form
Edited by
Kevin J. Roberts
Robert Docherty
Rui Tamura
AB 3
Engineering Crystallography: From Molecule
to Crystal to Functional Form
NATO Science for Peace and Security Series
This Series presents the results of scientific meetings supported under the NATO
Programme: Science for Peace and Security (SPS).
The NATO SPS Programme supports meetings in the following Key Priority areas: (1)
Defence Against Terrorism; (2) Countering other Threats to Security and (3) NATO,
Partner and Mediterranean Dialogue Country Priorities. The types of meetings supported
are generally “Advanced Study Institutes” and “Advanced Research Workshops”. The
NATO SPS Series collects together the results of these meetings. The meetings are co-
organized by scientists from NATO countries and scientists from NATO’s “Partner” or
“Mediterranean Dialogue” countries. The observations and recommendations made at
the meetings, as well as the contents of the volumes in the Series, reflect those of
participants and contributors only; they should not necessarily be regarded as reflecting
NATO views or policy.
Advanced Study Institutes (ASI) are high-level tutorial courses to convey the latest
developments in a subject to an advanced-level audience.
Advanced Research Workshops (ARW) are expert meetings where an intense but
informal exchange of views at the frontiers of a subject aims at identifying directions for
future action.
Following a transformation of the programme in 2006, the Series has been re-named and
re-organised. Recent volumes on topics not related to security, which result from meetings
supported under the programme earlier, may be found in the NATO Science Series.
The Series is published by IOS Press, Amsterdam, and Springer, Dordrecht, in conjunction
with the NATO Emerging Security Challenges Division.
Sub-Series
http://www.nato.int/science
http://www.springer.com
http://www.iospress.nl
edited by
Kevin J. Roberts
School of Chemical & Process Engineering
University of Leeds
Leeds, United Kingdom
Robert Docherty
Pfizer Global R&D
Pharmaceutical Sciences, Pfizer Global R&D
Sandwich, Kent, United Kingdom
and
Rui Tamura
Graduate School of Human and Environmental Studies
Kyoto University
Sakyo-ku, Kyoto, Japan
Published by Springer,
P.O. Box 17, 3300 AA Dordrecht, The Netherlands.
www.springer.com
Organising Committee
Robert Docherty (Pfizer Worldwide R&D, UK)
Annalisa Guerri (University of Florence, Italy)
Kevin J. Roberts (University of Leeds, UK)
Paola Spadon (University of Padova, Italy)
Giovanna Scapin (Merck & Co., Inc., NJ, USA)
Preface
This book is formed from selected papers and tutorials on the theme of Engineering
Crystallography: From Molecule to Crystal to Functional Form which were
presented at the 2015 International School of Crystallography. These international
summer schools are renowned for bringing together scientific experts in various
crystallographic fields with motivated students from around the world in an infor-
mal but engaged atmosphere. This facilitates a high level of interaction and
discussion which allows the subject matter experts present to help shape the next
generation of academic and industrial talent in the discipline. This was the 48th
such event which was held at the Ettore Majorana Foundation and Centre for
Scientific Culture in the beautiful and historic hilltop town of Erice in Sicily.
Lecturers were chosen from world experts in the fields of crystallography, solid-
state chemistry, crystallisation, materials science, computational multi-scale
modelling as well as particle technology and surface characterisation. Structural
and modelling techniques were integrated throughout the summer school. This
allowed participants to envisage how, in the next few years, computational and
experimental workflows will be seamlessly integrated during the transition from
molecule to crystal to function. The course consisted of plenary lectures, talks
selected from poster abstracts and technologies, plus, on the final day, a facilitated
question and answer session with a selected panel from the invited speakers.
Our motivation in designing the summer school was to help build bridges
between the solid-state architecture, the landscape of particle and surface properties
accessible from this structure and the impact of these on the function and perfor-
mance of structured products. This intent is inherent in the design of this book
where we have assembled the component chapters into:
• Form (inherent physical and chemical properties)
• Formation (how to prepare)
• Function (properties and performance)
Our construct of the course and the book has been shaped by a scientific
storyboard created by our community over the last few decades. These include:
vii
viii Preface
References
8. Hancock BH, Elliot J (2006) Pharmaceutical materials science: an active new frontier in
materials research. MRS Bull 31:869
9. Sun CC (2009) Materials science tetrahedron – a useful tool for pharmaceutical research and
development. J Pharm Sci 98:1671–1687
10. http://www.crystalgrowth2016.co.uk/ and http://pubs.acs.org/page/cgdefu/vi/11.html
11. Almarsson O, Vadas EB (2015) Molecules, materials, medicines (M3): linking molecules to
medicines through pharmaceutical material science. Crystal Growth Des 15(12):5645–5647
12. https://www.addopt.org/
13. https://novartis-mit.mit.edu/
14. http://www.csops.org/
15. http://www.sspc.ie/
16. https://www.cmac.ac.uk/
Acknowledgements
The majority of the organisational efforts that were so vital to the success of the
course were championed by Annalisa Guerri and Paola Spadon. They secured the
majority of the funding and co-ordinated the participant selection process in a
highly diligent and professional manner. In partnership with the orange scarves
team (Giovanna Scapin, Valentina Marcheselli, Vania André, Paolo Mazzeo,
Matteo Lusi, Tamlyn Young, Francesco Farinella and Martin Schmidt), Annalisa
and Paola created a warm welcoming atmosphere where students could engage with
each other and with the invited subject matter experts. The red team Erin Davis,
Fred Boyle and Fabio Nicoli played a crucial role providing audiovisual support for
the lectures as well as the computing infrastructure for the tutorials. The scientific
and organising committees gratefully acknowledge all of the Ettore Majorana
Centre staff for their support during the event.
The editors would like to thank Ulrike Aufderhorst for directing and organising
the editing of the Erice summer school proceedings and for her energetic support
regarding assembling this book for publication. We would also like to thank Mauris
Chen and Hayley Harding for their help.
The summer school was financed by NATO, and we gratefully acknowledge the
NATO Science Committee for their continued support. Generous financial support
was also received from the International Union of Crystallography, the European
Crystallographic Association, the Cambridge Crystallographic Data Centre, Merck,
AbbVie, Dectris, PANalytical and New York University.
The development, delivery and publication of this summer school proceeding
represent a deliverable of the Advanced Digital Design of Pharmaceutical Thera-
peutics (ADDoPT) research project funding through the UK’s AMSCI scheme, and
we gratefully acknowledge them for their generous support.
xi
xii Acknowledgements
Contents
Part I Form
1 Crystal Science Fundamentals . . . . . . . . . . . . . . . . . . . . . . . . . . . 3
Vasuki Ramachandran, Peter J. Halfpenny, and Kevin J. Roberts
2 Molecular Structure and Chirality and Chiral Crystals . . . . . . . 21
Reiko Kuroda
3 Supramolecular Assembly and Solid State Chemistry . . . . . . . . . 35
Christer B. Aaker€oy and Manomi D. Perera
4 Solid Form Landscape and Design of Physical Properties . . . . . . 45
Christer B. Aaker€oy and Bhupinder Sandhu
5 Design of Physical Properties and Solid Form Design . . . . . . . . . 57
Robert Docherty and Kevin Back
6 Modelling Route Map: From Molecule Through the Solution
State to Crystals . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 71
Robert B. Hammond
7 Crystal Growth and Morphology of Molecular Crystals . . . . . . . 109
Ian Rosbottom and Kevin J. Roberts
8 Determining Surface Energetics of Solid Surfaces . . . . . . . . . . . . 133
Jerry Y.Y. Heng
9 Crystal Effects Influencing the Course of Organic Solid State
Reactions: Perfect, Imperfect and Surface Effects . . . . . . . . . . . . 145
William Jones
10 Synthonic Engineering Modelling Tools for Product
and Process Design . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 155
Jonathan Pickering, Robert B. Hammond, Vasuki Ramachandran,
Majeed Soufian, and Kevin J. Roberts
xiii
xiv Contents
Part II Formation
11 Crystallisation Route Map . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 179
Diana M. Camacho Corzo, Cai Y. Ma, Vasuki Ramachandran,
Tariq Mahmud, and Kevin J. Roberts
12 Phase Diagrams for Process Design . . . . . . . . . . . . . . . . . . . . . . . 215
Gerard Coquerel
13 Seeding in Crystallisation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 235
Jose V. Parambil and Jerry Y.Y. Heng
14 Preparation, Stabilisation and Advantages of
Metastable Polymorphs . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 247
Ana Kwokal
15 Crystallisation Control by Process Analytical Technology . . . . . 261
Ana Kwokal
16 Methods for Nano-Crystals Preparation . . . . . . . . . . . . . . . . . . . 275
Samir A. Kulkarni and Allan S. Myerson
17 Crystallization Control Approaches and Models . . . . . . . . . . . . . 289
Zoltan K. Nagy
18 Application of Ultrasound in Crystallization
(Sonocrystallization) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 301
Christopher J. Price
19 Continuous Pharmaceutical Crystallization from Solution . . . . . 315
Christopher J. Price
20 Viedma Ripening and Its Role in the Chiral Separation
of Optical Isomers . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 331
Martin Iggland, Giovanni Maria Maggioni, and Marco Mazzotti
21 Mechanochemistry and Its Role in Novel Crystal
Form Discovery . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 341
William Jones
22 Innovative Spontaneous Chiral Resolution Phenomenon:
Preferential Enrichment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 353
Rui Tamura
xxi
xxii About the Editors
and Development (IPRD). He was awarded his DSc from the University of Strath-
clyde in 2004.
Over his career, he has published more than 250 peer-reviewed journal papers
and 7 chapters of books.
1.1 Introduction
Structure
Properties
Performance
The above holistic approach forms the overall aim of this Erice Summer School
and in this brief introductory chapter the aim is to provide a short primer to the
attendees for those unfamiliar with basic concepts of crystal science. The materials
introduced here will underpin further chapters.
The principle differences between the three states of matter, solids, liquids and
gases, illustrated in Fig. 1.2, lie in the separation and mobility of the atoms or
molecules of which they are composed. In the gaseous state, molecules are highly
mobile and separated by large distances. In liquids, molecules are in close proxim-
ity but still retain substantial mobility. While in the solid-state, molecular motion is
typically limited to vibration and intermolecular distances are at a minimum
A crystal is a regular array of molecular entities, ordered in 3D where this degree
of order extends up to macroscopic dimensions. A single crystal is the one in which
this 3D order extends up to the sample’s physical size. In contrast, a polycrystalline
solid is the one where the crystal size is smaller than the actual sample size. In the
latter case the sample could be aggregate of a number of smaller micro-crystalline
grains such as an iron bar or a ceramic block, either of which could have a grain size
of ca. 1 μm. It should be noted that the atomic level properties of both poly- and
mono-crystalline solids are the same as the atomic-scale forces operate on the nm
scale size, at which level the difference in nature of the molecular interactions
between 1 μm3 (micro-crystal produced in industrial crystallisation reactors) or
1 Crystal Science Fundamentals 5
Fig. 1.2 Schematic diagram highlighting the differences between the gaseous (left), liquid
(centre) and solid (right) states of matter
100 cm3 (for electronic device materials) samples are negligible. Hence, the science
underlying the structure and crystallisation behaviour for both of these types of
materials, i.e. single crystals and polycrystalline solids is essentially the same.
Solids may be either crystalline or amorphous in nature. Crystalline solids are
characterised by long-range 3D order and exhibit a periodic three-dimensional
pattern in terms of the arrangement of the component atoms of the solid. The
structure of amorphous solids, in contrast, closely resembles that of the liquid
state. Although some short-range order may be present in amorphous solids, they
are best described as disordered. An amorphous solid is thermodynamically meta-
stable. It may transform to a crystalline structure if the kinetic barriers are not too
great. However, many amorphous materials, such as glass, have retained their
disordered structure for centuries. Materials with the same molecular structure
can also have different crystal structures and this is referred to as polymorphism.
For example, carbon forms crystals which can have one of three well known
structures: graphite, diamond and buckminsterfullerene.
The structural differences between the different polymorphic forms of crystals
and also those of amorphous forms of a given substance can give rise to substantial
differences in both their physical and chemical properties. The relationship between
structure and properties is a recurring theme which runs throughout this school.
Fig. 1.3 A simple 2D pattern of a complex object (a butterfly) (a) together with its corresponding
lattice (b) as represented by circles
(a) (b)
b c
β α
b b
γ
a γ
a a
Fig. 1.4 (a) The unit cell and lattice parameters of the two dimensional pattern and (b) a three-
dimensional unit cell, crystallographic axes a, b, c and the lattice parameters, a, b, c, α, β, γ
Fig. 1.6 Crystallographic planes or Miller planes are denoted by the reciprocal of the fractional
coordinates of intercept of the plane with crystallographic axes
8 V. Ramachandran et al.
A vector ruvw in lattice with respect to the three (integer) vectors u, v, w is defined
as:
ruvw ¼ ua þ vb þ wc ð1:1Þ
a, b and c are lattice parameters defining the size and shape of the unit cell but are
not necessarily orthogonal. Hence, this is why we additionally need three angles to
define the unit cell. α – angle between b and c; β – angle between a and c, γ – angle
between a and b.
The inter-relationship between a, b, c, α, β and γ gives rise to a total of 7 crystal
systems as shown in Table 1.1. Examples of unit cells, Ibuprofen and D-mannitol,
are illustrated in Fig. 1.7.
Fig. 1.7 Examples of unit cells: (a) Ibuprofen [2] belonging to monoclinic structure with:
a ¼ 14.67, b ¼ 7.89, c ¼ 10.73, β ¼ 99.36; (b) D-mannitol [3] belonging to orthorhombic structure
with: a ¼ 8.67, b ¼ 16.88, c ¼ 5.56
1 Crystal Science Fundamentals 9
We now need to add the chemical nature of the material into our concept of the
crystal lattice. For a given molecule there are two dominant factors (Fig. 1.8) which
influence what crystal structure a given material might adopt:
These factors affect physical and crystallographic properties. We can subdivide
types of solid into five main groups of materials (see Fig. 1.9).
HYDROGEN
COVALENT IONIC METALLIC MOLECULAR
BONDED
SOLIDS SOLIDS SOLIDS SOLIDS
SOLIDS
Fig. 1.9 Schematic showing the major types of inter-molecular bonding expected in the solid-
state in relation to their relative strengths and their directional nature
Directed bonds tend to stop or restrict close packing which, in turn, makes for a
lower density solid when compared with similar materials which have undirected
bonds. The size of a molecule is reflected on the magnitude of the unit cell lattice
parameters; e.g. the molecular solid benzophenone [4] ((C6H5C ¼ O)2) has lattice
parameters of a ¼ 10.28, b ¼ 12.12, c ¼ 7.99 A (orthorhombic) whilst much smaller
atomic materials such as metal copper has a ¼ 3 Å (cubic). The shape of a molecule
reflects on the crystal system:
• Elemental compounds, such as metals and semiconductors, crystallising in high
symmetry crystal classes such as cubic and hexagonal.
• Irregularly shaped molecules, such as organic molecules and inorganic com-
plexes, crystallising in the lower symmetry triclinic, monoclinic classes.
The nature of bonding in any solid is of considerable importance since it
influences, either directly or indirectly, a wide range of properties, notably melting
10 V. Ramachandran et al.
point, crystal structure and mechanical properties. Most organic solids are molec-
ular in nature. While the atoms within a molecule are held together by strong
covalent bonds, the interatomic interactions are saturated and hence only weak
intermolecular forces exist between molecules. Many pharmaceutical compounds
are utilised in the form of salts and therefore exist as ionic species. In such cases, the
role of strong ionic interactions must also be considered.
Three factors are of particular importance in assessing the influence of
intermolecular bonding on the properties of organic solids:
• Strength of the interaction,
• Distance over which the interaction exerts an influence,
• Extent to which the bonding is directional.
Table 1.2 summarises the principle types of intermolecular bonding in organic
solids.
After the school had been in progress two years, [Sidenote: School
Samuel Jackson reported that it “appeared to be in discontinued]
an increasing way”[344] but its prosperity was not to
be long continued. In 1705 it was reported “discontinued,”[345] and
no reason assigned for it excepting “the situation of the Friends
there” which, taking into consideration the shortage of funds when it
was begun, we may infer, had reference to the financial situation.
The action of the monthly meeting in regard to it was left entirely to
their own judgment.[346]
SUMMARY
In this chapter we have considered the schools [Sidenote: Scope
of Philadelphia (city and county), and also those at of chapter]
Exeter Monthly Meeting, which belonged to the
Philadelphia Quarter.
Education in the Quaker colony was initially [Sidenote:
provided for in the instrument of government, Education to be
drawn up before the Proprietary left England; in function of
government]
accord with said provisions the first school
(Flower’s) was set up by the Council in 1683. [Sidenote: First
Thereafter, however, the initiative was usually school]
taken by the Quaker meeting, which in 1689 set up [Sidenote: School
a school and in 1697 applied for a charter under established by
the laws of the province. This petition was granted monthly meeting]
and Penn gave the first charter in 1701. Later
[Sidenote:
charters, in 1708 and 1711, granted extended Overseers made
privileges; by the last one the body of overseers independent]
were made self-perpetuating, and thus as
independent of the meeting as they wished to be. The letter said to
have been written to Thomas Lloyd, which credits Penn with
suggesting the school of 1689, has not yet been discovered.
The earliest masters were Keith, Makin, [Sidenote: Earliest
Pastorius, and Cadwalader. Mistresses were masters and
mentioned in connection with the schools from mistresses]
about 1699, Olive Songhurst being the first one [Sidenote: Growth
named. Salaries were not high and seem in some of system]
cases to have hardly sufficed for the family of the
master; increases were made upon complaint. Extra duties for the
teacher included keeping charge of the boys and girls in meeting.
From 1689 to 1779 the system increased from employing one to one
which required nine. In 1784 ten were reported.
Philadelphia Friends’ schools were first [Sidenote: Means
supported by (1) rates and (2) subscriptions, while of support]
(3) legacies and special gifts soon came to form a
considerable item in their support. Bequests were also a factor in the
support of the Negro School. Funds were occasionally raised by
bond issues, and derived from tenements built on school property.
Schools were first held in rented property and in [Sidenote: Place
the meeting house, but in 1698 steps were taken to of first schools]
purchase property of Lionell Brittain for the use of
schools. Property was received as a gift from [Sidenote:
Property by
Samuel Carpenter in 1701. The first record of a purchase and gift]
schoolhouse was the one to be begun in 1701. In
accord with their charter rights the power and [Sidenote:
Overseers more
independence of the overseers increased. In 1725 independent]
the monthly meeting conveyed to them all money
and the titles for all school property. The Negro School was provided
with a building in 1771. The end of the century is marked by the
establishment by the yearly meeting of a Boarding School at
Westtown in Chester County.
The exact date of Byberry’s first school is not [Sidenote:
determined; but must have been early, since Byberry]
Richard Brockden is reported to have been
schoolmaster there in 1711. School activity, however, seems to have
increased greatly near the middle of the century. The school was
under the care of a standing committee, which was to visit schools
every six weeks and make two reports thereon each year. Poor
children were schooled by the trustees of the school funds.
Germantown school began in 1702, though [Sidenote:
perhaps an evening school existed before that Germantown]
date. Pastorius continued in this school as master,
at least until 1718. The official language used in the school was
probably English. The names of the first patrons were all German; a
large number of English names among them in 1708 is an indication
of how the school and its master were regarded.
In 1758 youths’ meetings were established by [Sidenote: Exeter
Exeter, but no school committee was appointed Monthly]
until 1778. This committee accomplished nothing
[Sidenote:
and made no report of value. By a report of 1784, Maidencreek
Maidencreek, Reading, and Robeson were credited Reading
with one school each, which measured up in some Robeson]
ways to the desired standards. Exeter had none.
The Reading School was discontinued in 1795.
The total number of schools reported at Philadelphia,
Germantown, Byberry, and Exeter monthly meeting, was fifteen.
CHAPTER V
SCHOOLS OF BUCKS COUNTY
And in 1780:
to inspect into the state of such schools as are now kept and
where it may be necessary, to promote others,