Molecules: Structure, Reactivity, and Function

Faculteit Science and Engineering
Jaar 2019/20
Vakcode WPCH16001
Vaknaam Molecules: Structure, Reactivity, and Function
Niveau(s) propedeuse
Voertaal Engels
Periode semester I a

Uitgebreide vaknaam Molecules: Structure, Reactivity, and Function
Leerdoelen At the end of the course, the student is able to:
1. describe the orbital structure and the electronic 'aufbau' of small atoms and typical organic molecules made of these atoms at an elementary and qualitative level

2. classify any object with respect to a point group using its symmetry elements and to understand the basic elements of stereochemistry in terms of this knowledge concerning symmetry

3. explain which circumstances and structural properties of molecules are important in chemical reactions, based on the two standard substitution reaction mechanisms in organic chemistry; be able to steer the course of a nucleophilic substitution reaction by adjusting the reagents and reaction circumstances

4. describe the structure and properties of pi-conjugated molecular orbitals and the energy levels;describe absorption and emission of light by molecules(electron energy levels and transitions between them);compare pi-conjugated systems and predict differences between the systems(color,energy,reactivity);know the aspects concerning electrical conduction and transfer of energy in and between molecules

5. describe the materials that are subject of ongoing research in the field of organic electronics within our faculty – e.g. conjugated polymers, fullerenes, (carbon) nanotubes, graphene- and to describe the basic structure of devices like OLEDs and organic solar cells, in which these materials can be applied

6. work in an academic chemical laboratory according to the rules and habits, with a focus on the following essential elements: planning, performing and reporting about an experiment, keeping a notebook, and handling waste properly
Omschrijving This module is divided into three parts:

Part 1. Molecular structure. Discussion from the perspective of organic bonds. Important aspects: Valence bond theory, molecular orbital theory, VSEPR, resonance structures, atomic orbitals, hybridization, molecular orbitals, Lewis structures, and symmetry/stereochemistry. (Vollhardt & Schore: Organic Chemistry;(V&S), Chapters 1, 2, 5; Atkins, de Paula, Friedman: Physical Chemistry, Quanta, Matter, and Change, Topic 31).
Part 2. Based on SN1 and SN2 reactions, essential concepts such as reaction mechanism, transition state, intermediates, solvation, reactivity, and steric hindrance will be discussed. Furthermore, how to apply this knowledge to affect the course of a reaction. (V&S Chapters 6, 7).
Part 3. Molecular functionality. Opto-electronic functionality will be dealt with mainly, as an example of molecular functionality. First, molecules with delocalized -systems will be introduced (V&S Chapters 14, 15). Next, a diversity of electronic properties and functionalities of more complex structures will be dealt with (incl. acenes, porphyrins, molecular carbon, and conjugated polymers). This part of the module ends with an introduction to ongoing research in the field of organic electronics within the faculty and (possible) applications of organic electronics in practice. (Reader, Atkins et al., Topics 46.1 and 93)
Uren per week
Onderwijsvorm Hoorcollege (LC), Practisch werk (PRC), Werkcollege (T)
(Total hours of lectures: 24 hours, Tutorials: 24 hours, Self study: 60 hours, practical 32)
Toetsvorm Opdracht (AST), Practisch werk (PR), Schriftelijk tentamen (WE)
(For the exact calculation of the final grade, based on the final written exam, midterm exam, homework assignments and PR, see below under 'remarks)
Vaksoort propedeuse
Coördinator prof. dr. J.C. Hummelen
Docent(en) prof. dr. J.C. Hummelen ,prof. dr. E. Otten
Verplichte literatuur
Titel Auteur ISBN Prijs
Organic Chemistry, structure and function (2018). (Chapters 1, 2, 5, 6, 7, 14, 15) Vollhardt & Schore 978-1-319-18771-2
The reader document belonging to the course will be provided as pdf file through the Nestor site of the course.
Physical Chemistry, Quanta, Matter, and Change (2014). (Topics 31, 46.1, and 93)
Atkins, de Paula, Friedman 978-0-19-960981-9
Entreevoorwaarden The course unit assumes prior knowledge acquired from secondary school. During the first three lectures will be refresher lessons to make sure all students have the same prior knowledge.

The learning objectives of the course unit are required as prior knowledge for the courses Organic Chemistry 1, Biochemistry 1 and Spectroscopy.
Opmerkingen (a) Final grade theory part (FGT):
If FE>=4½, then FGT = max(FE, 0,2*HW + 0,8*FE, 0,2*MT + 0,8*FE, 0,2*HW + 0,2*MT + 0,6*FE), with FGT as final grade theory part, FE as grade for the final exam, HW the mean grade for home work, and MT as grade for the midterm exam.
FE>=4½ means that a minimum 45 of the 100 points have to be reached.
In the ‘max’-formula homework and midterm exam grades are counted in the most favorable way for the student: either only HW, or only MT, or both grades for HW and MT.
The FGT is included with 0.1 point precision in the calculation of the final grade (see below)
In the case of a re-exam, FE=FGT (i.e. homework and midterm exam not considered)

(FGC = (2*FGT + mean P1,P2)/3; in which FGC is the final grade of the course, FGT is the final grade of the theory part and P1,P2 are the grades of the two practicums.
Thereafter, the teachers round the grade to 0.5 point precision, except the grade 5.5 (not given).

Mandatory presence parts: during the introduction session concerning the practicals, and during the scheduled lab days of both practicals. The consequence of absence without prior notice and approval is failing that practical, hence failing the course until the practical has been passed during a second chance.
Opgenomen in
Opleiding Jaar Periode Type
BSc Chemical Engineering 1 semester I a verplicht
BSc Chemistry 1 semester I a verplicht