MSR Module Guide Pharm 09-10

7/27/2019 MSR Module Guide Pharm 09-10

1/8

Molecular Structure and Reactivity (Pharmacy) Code: 1PHA0003

Credit Points: 30 Level: 1 Semester AB 2009/2010

Course Aims

The aims of this module are to enable students to . . . appreciate the central role of inorganic, physical and organic chemistry in the determination of

molecular structure;

to develop the ability to predict molecular reactivity from the basis of a structural

understanding;

to understand the chemistry associated with the key organic functional groups that are present in

biologically active molecules.

Learning Outcomes

Knowledge and Understanding:

Successful students will be able to:

describe spectroscopy and its role in structure determination

demonstrate a knowledge of kinetic and thermodynamics

describe the structures of organic and inorganic molecules

demonstrate a knowledge of periodicity and basic inorganic chemistry

describe the chemistry of alkenes, alkanes, halides; carbonyls, amines, alcohols, ethers, sulfides

and the benzene aromatics

Skills and Attributes:

Successful students will be able to:

predict how a given reaction should proceed

use functional group chemistry to design simple synthetic reaction sequences

conduct simple laboratory based syntheses and perform experiments to determine properties of

different compounds

communicate scientific data, locate information relevant to studies in molecular structure and

reactivity at Level 1

manipulate quantitative information related to molecular structure and reactivity at Level 1

Brief Description

Chemical equations, valency and formulae, moles and related calculations, ionic and covalent

bond and associated molecular shapes, based on s,p,d (and associated hybrid) orbitals (VSERP).Foundations of organic chemistry including nomenclature, bonding and structure, reaction of

organic molecules and factors affecting, stereo chemistry. (E/Z ,R/S and d/l (D/L) systems,

introduction to types of mechanism (SN1,2 etc) chemistry of functional groups

(eg carbonyl, nucleophilic groups, Chemistry of Benzene, alkenes, organic halides.

Introduction to spectroscopy.

MSR Module Guide Pharmacy 08.09 Page 1 of 8


2/8

Module Co-ordinator: Paul Bassin (PB) ([email protected])

Module Team: Sara Evans (SE) David Griffiths (DG) Andrew Hutt (AJH)

Steve Hall (SH) Sharon Rossiter (SR) Theo Berkhout (TB)Suzanne Fergus (SF) Jacque Stair (JS) Stewart Kirton (SK)

Lecture and Workshop Timetable - Tuesday

Precise week numbers and timetable information may change.

Revision Sessions:

Students should be prepared to raise any questions they wish on any aspect of the curriculum.


Week Lecture Tuesday

14.00-15.00

Prince Edward Hall

Lecture Tuesday

15.00-16.00

Prince Edward Hall

Workshop Tuesday

16.00-17.00

Room B400

Workshop Tuesday

17.00-18.00

Room B400

INDUCTION WEEK

2 Thermodynamics SK Structure, equations moles and

calculation TB3

4

Structure, equations moles and

calculation TB

Structure, equations moles and

calculation TB

5 Thermodynamics SK Thermodynamics SK MSR W1 Group 1,2,3 SK MSR W2 Group 1,2,3 TB

6 Lab lecture MSR 2 PB Organic lecture 1 PB MSR W1 Group 4,5,6 SK MSR W2 Group 4,5,6 TB

7 pH & Buffers

TBOrganic lecture 2 PB MSR W1 Group 7,8,9 SK MSR W2 Group 7,8,9 TB

8 Organic lecture 3 PB MSR W1 Group 10.11.12 SK MSR W2 Group 10,11,12 TB

9 Organic lecture 4 PB

10 Atomic and Molecular Orbitals

and Molecular Shape DG

Organic lecture 5 AJH

11 Atomic and Molecular Orbitals MSR W3 Group 1,2,3 TB MSR W4 Group 1,2,3 SF

12 Radioactivity SH Radioactivity SH MSR W3 Group 4,5,6 TB MSR W4 Group 4,5,6 SF

13 -15 CHRISTMAS VACATION

16 Radioactivity SH Organic lecture 6 AJH MSR W3 Group 7,8,9 TB MSR W4 Group 7,8,9 SF

17 INTERSEMESTER EXAMINATIONS

18 Kinetics DG Organic lecture 7 AJH MSR W3 Group 10.11.12 TB MSR W4 Group 10,11,12 SF

19 Organic lecture 8 AJH

20 Lab lecture MSR 4 PB MSR W5 Group 1,2,3 DG MSR W6 Group 1,2,3 AJH

21 Organic lecture 9 SF Organic lecture 10 PB MSR W5 Group 4,5,6 DG MSR W6 Group 4,5,6 AJH

22 Organic lecture 11 SF Organic lecture 12 PB MSR W5 Group 7,8,9 DG MSR W6 Group 7,8,9 AJH

23 Organic lecture 13 SR Organic lecture 14 SR MSR W5 Group 10.11.12 DG MSR W6 Group 10,11,12 AJH

24 Organic lecture 15 SR Organic lecture 16 SR

25 Organic lecture 17 SR Organic lecture 18 SF MSR W7 Group 1,2,3 SF MSR W8 Group 1,2,3 SR

26 Organic lecture 19 JS Organic lecture 20 JS MSR W7 Group 4,5,6 SF MSR W8 Group 4,5,6 SR

27 Spectroscopy SE Spectroscopy SE MSR W7 Group 7,8,9 SF MSR W8 Group 7,8,9 SR

28-29 EASTER VACATION

30 Spectroscopy SE Spectroscopy SE MSR W7 Group 10.11.12 SF MSR W8 Group 10,11,12 SR

31 REVISION REVISION REVISION REVISION

32-36 SEMESTER B EXAMINATIONS
mailto:[email protected]:[email protected]


3/8

Practical timetable

Week Friday 14.00-18.00

Groups 1,2,3,4

Friday 14.00-18.00

Groups 5,6,7,8

Friday 14.00-18.00

Groups 9,10,11,12

INDUCTION WEEK

2 Lockers (1C104) Lockers (1C104) Lockers (1C104)

3 MSR 1 TB/AJH 4 MSR 1 TB/SH/MJF

5 MSR 1 TB/AJH/MJF

6 MSR 2 PB/TB

7 MSR 2 PB/SR

8 MSR 2 PB/SR

9 Use of Crossfire and ISIS Draw, H150, 2-6 pm/PB/LC. See studyNet for details

10 MSR3 SF/TB/MJF

11 MSR 3 TB/AJH/MJF

12 MSR 3 SF/TB/MJF

13 - 15 CHRISTMAS VACATION

16

17 INTERSEMESTER EXAMINATIONS18

19

20 MSR 4 SH/DG

21 MSR 4 DG/SR/MJF

22 MSR 4 DG/SE

23

24

25 MSR 7 All staff MSR 7 All staff

26 MSR 7 All staff

27 Good Friday No Practicals

28-30 EASTER VACATION

3132

33 - 36 SEMESTER B EXAMINATIONS

MSR 6 will run on Wednesday mornings from 9.00-13.00 in 2G168 in C.P.Snow building

Week 23 (group 1,2,3) (Staff; DG/JS/TB)




ASSESSMENT (25% examination, 75% coursework)

A pass is normally required in both examination and coursework

All work for assessment must be accompanied by a coversheet available from the CP Snow reception.Marked work will generally be returned in class or through the CP Snow reception.

NSA laboratory work will be discussed/marked in the laboratory session.

The nature and value of the assignments are shown below.



4/8

Nature of assessment Code Deadline Staff Value

Beilstein MSR 8 Week 21 PB 10%

Kinetic MSR 9 Week 27 DG 15%

Details on Assignments MSR 8 and MSR 9

The use of ISIS & Beilstein. MSR 8

Titles will be issued in week 10. Deadline week 21. This is a scientific data exercise. You will be

individually assigned a compound and be expected to carry out a data search using Crossfire Beilstein.

We would normally expect you to spend approximately 10 hours on this work in addition to your regularstudies on this module.

Kinetics Assignment MSR 9 (to be handed in week 27)

Assignment will be put on studynet in week 20. This is a calculation based activity where students

determine the initial rate, order, rate constant and half- life for one component of a particular reaction (in

this case the hydrolysis of a commonly used pharmaceutical excipient (sucrose) under acidic conditions).

You should expect to spend a minimum of 10 hours on this piece of work.

Laboratory Classes

Weeks Code Title Lab. Report Assessed

SA

*

NSA

3,4,5 MSR 1 Redox Reactions (NH2OH/Fe2+) 1C100

6,7,8 MSR2 Benzocaine 1C100 Full *

10.11,12 MSR3 Influence of pH on drugs absorption 1C100

20,21,22 MSR4 Eugenol isolation 1C100 Full *

25 MSR5 Friedel-Crafts Alkylation 1C100

23, 24,25,

30

MSR6 Preparation of radioactive solution 2G168

25,26 MSR7 Practical Test 1C100 *

* SA - summative assessment

NSA - compulsory but not summative assessment

Timetabled feedback sessions

Feedback on assignments and practicals will occur during the workshops and practical sessions.

Details will also be posted on Studynet



5/8

PTS assessment

Code Title PTS Assessment

MSR 1 Redox Reactions (NH2OH/Fe2+) COM, NUM, PS

MSR 2 Benzocaine A, COM, GW, NUM

MSR 3 Influence of pH on drugs absorption COM, A,GW

MSR 4 Eugenol isolation A, COM, NUM

MSR 5 Friedel-Crafts Alkylation COM, A,

MSR 6 Preparation of radioactive solution COM, NUM, PS

MSR 7 Practical Test COM, A,NUM,PS

MSR 8 The use of ISIS & Beilstein . A, IM,

MSR 9 Kinetics Assignment COM, NUM

NB These are the skills that we think you will use while carrying out the assignments. You can ask for

other skills to be assessed if you think they are appropriate.

Key to PTS skills

A Autonomy taking responsibility for themselves NUM Numeracy

IM Information management GW Group workingCOM Oral and written communication PS Problem solving

SERP Self evaluation and reflective practice

Workshop subjects

It is essential to prepare for workshops and to be prepared to contribute to them. Consult your workshop

booklet and bring it with you to the class. Workshops are compulsory. Your record of attendance

will be taken into account at the Board of Examiners when deciding your grade. You must attend

at least 75% of these workshops in order to pass A for PTS1.

You will be required to record your workshops in a log book which will be assessed periodically by

your personal tutor.

Workshop No Topic Staff

MSR W1 Thermodynamics SK

MSR W2 Chemical equations and calculations TB

MSR W3 Solutions, electrolytes, pH and Buffers TB

MSR W4 Structures, resonance & aromatics SF

MSR W5 Kinetics DG

MSR W6 Stereochemistry AJH

MSR W7 Substitution and elimination reactions SF

MSR W8 Functional groups SR

Performance in laboratory classesIn order to meet the learning outcomes for the module you must attend all laboratory classes. If you missa laboratory class (both SA or NSA) it is your responsibility to contact the module coordinator by email

immediately giving the reason for your lack of attendance. If you have a legitimate reason for missing a

session, the module coordinator may be able to arrange your attendance at a subsequent running of the

practical session or ask you to do alternative work(alternative work will be posted on studynet).Failure to inform the module coordinator and submit the alternative work will result in you being

penalised by deduction of 5% of your coursework mark.



6/8

You must use your logbook for making notes and recording data for all laboratory experiments.

Logbooks should normally be completed during the practical. If data are not available (e.g. because of

experimental constraints) written work can be completed either before or during the following laboratory

session. Logbooks should briefly record Aims, Results and Conclusion. Proforma reports involve using

notes in logbooks to fill in a prepared sheet. Proformas may need to be completed within the laboratorysession or outside the session as instructed by academic staff. Logbooks and Proformas may be marked

either at the end of a practical session or in a subsequent session as instructed. Full reports should havean Abstract, Introduction, Aims, Materials and Methods (do not reproduce the schedule), Results,

Discussion and References as detailed in the student handbook. The Results should show calculations

where appropriate and the Discussion should interpret data put into context with textbook information.

To avoid plagiarism when working in pairs, you should discuss the results of your experiments with

your laboratory partner but the report should always be your own work, in your own words. Work

done as a group may, in some cases, be submitted as a group report but the structure of the report should

follow the same format.

Full reports must be completed on or before deadlines specified which is normally 2 weeks (for full time

students) and 3 weeks for part time students) after the last session of that practical. However, you are

strongly encouraged to submit practical reports as soon as possible. Late submission of up to 1 week will

result in a maximum mark of D3. Extensions must be requested from Pathway Tutor or Associate Headof Department (see the student handbook for detail of the procedure). Unsatisfactory completion of

laboratory assignments or lack of attendance will result in a reduction of 5 percentage points from

the % coursework mark, for each omission i.e. 2.5 percentage points from the overall module mark.

Thus, you will risk FAILURE of the module by not attending a practical or not completing

satisfactorily non-summatively assessed exercises. In the past, students have failed modules because

of this penalty and, as a result, put their progression to the next level, and even their degree, at risk.

Plagiarism

Plagiarized work will be given zero marks. You may also be reported to the Faculty Academic Conduct

Officer which may result in disciplinary action taken against you (see Departmental Handbook for further

details).

Coursework Examination

Laboratory reports: One unseen 2 hour written examination 25%

2 Full reports (15% each) 30%

Practical Test 10%Assignments:

Kinetic 15%

Beilstein 10%

8 Random drop-quizzes 10%

A PASS IS NORMALLY REQUIRED IN BOTH EXAMINATION AND COURSEWORK

The Relationship Between Learning Outcomes and Assessment:



7/8

BOOK LIST

RECOMMENDED PURCHASE

Housecroft C.E & Constable E.C. (2006) Chemistry (3 th edition) Pearson Prentice Hall.

RECOMMENDED READING


Learning Outcomes Exm

PRACTICALS (MSR 1-7)

Assignments (MSR 8, MSR 9) &

Drop Quizzes (10)

1 2 3 4 5 6 7 8 9 10

describe spectroscopy and its role in

structure determination

demonstrate a knowledge of kinetic

and thermodynamics

describe the structures of organic and

inorganic molecules

demonstrate a knowledge of

periodicity and basic inorganic

chemistry

describe the chemistry of alkenes,

alkanes, halides; carbonyls, amines,

alcohols, ethers, sulfides and the

benzene aromatics

predict how a given reaction should

proceed

use functional group chemistry to

design simple synthetic reaction

sequences

conduct simple laboratory based

syntheses and perform experiments to

determine properties of different

compounds

communicate scientific data, locate

information relevant to studies in

molecular structure and reactivity at

Level 1

manipulate quantitative information

related to molecular structure and

reactivity at Level 1


8/8

Dewick, P.M. (2006) Essentials of Organic Chemistry for Students of Pharmacy, Medicinal

Chemistry and Biological Chemistry, Wiley

Zatz J.L. and Teixeira M.G., (2005) Pharmaceutical Calculations (4th Edition) Wiley Interscience.

Blein, I and Odian, G. (1999) General Organic and Biochemistry W.F.Freeman.

Brown W.H. (1995) Organic Chemistry Saunders College Publishing.

Carey F.A. (2000) Organic Chemistry (4

th

edition) McGraw-Hill Inc. Chang, R (2000) Physical Chemistry for the Chemical and Biological Sciences University

Publishers Inc

Patrick G. (2000) Instant Notes in Organic Chemistry Bios Scientific Publishers

Thomas, Gareth (1996) Chemistry for Pharmacy and the Life Sciences Prentice Hall

Atkins, P. and Jones, L. (2005) Chemical Principles The Quest for Insight. 3 rd Edition

W.H.Freeman.

Atkins, P. and Jones, L. (2000) Molecules, Matter and Change. W.F.Freeman

Handbook of Chemistry & Physics, CRC Press

In addition there are many organic chemistry/synthetic chemistry books available in the library you are

advised to extensively delve into these books.

Communication

All communication concerning this module will be via StudyNet. You should check the module site at

least weekly.

The information given in this module guide is believed correct at the time of going to press, but the Department reserves theright, at its discretion, and for any reason, to make changes to the guide without prior notice, and in particular:(a) to make changes to syllabuses and modules for reasons including meeting technological or academic developments or

employers' requirements particularly in specialist options.(b) not to offer options, specialisms or elective modules within a programme of study, where there is insufficient student

demand.


Documents

MSR Module Guide Pharm 09-10