Biology Online Module Handbook

BL2306 Biochemistry

(BL2306 online module handbook version 43)

cover image
Due to recent technological developments, metabolism and its regulation has re-emerged as an important area of Biology. This module will examine major biological macromolecules, the common motifs which occur in metabolic reactions, explore the properties of enzymes catalysing these reactions and consider the approaches to characterise the small molecule complement (metabolites) of biological systems. A number of central metabolic pathways and their control will be studied in detail, alongside examples of their importance in disease and recent metabolomic studies.*

Credits: 15*

Semester: 2

Module Organiser
Dr Jacqueline Nairn
jn37@st-andrews.ac.uk
01334 463604
Pre-requisite Modules:
Before taking this module you must pass BL1101 and pass BL1102*
Anti-requisite Modules:
You cannot take this module if you take BL2104*
Post-requisite Modules:
*
Additional Module Information:
Please check MMS regularly for additional module information


Biology Teaching Office:
The Biology Hive, New Technology Centre, University of St Andrews, North Haugh, St Andrews, Fife KY16 9SR

Email: bioteach@st-andrews.ac.uk      Tel: 01334  463602

BL2306: Timetable

Legend (not all modules have every event type):
lecture
tutorial
workshop
practical
other

Semester 2: Week 1

DATE & TIMEVENUESTAFFEVENT
Monday
28-01-2019
14:00 to 14:30
Mathematical Institute
Lecture Theatre C
Dr Jacqueline Nairn

Lecture L1: Module Introduction & Introduction to Practical 1 Lab Skills
2018-9_BL2306_L1
Lab Group 1 only
Monday
28-01-2019
14:30 to 17:00
Chemistry
Purdie Lab
Dr Jacqueline Nairn

Practical P1: Practical 1 - Lab Skills
2018-9_BL2306_P1
Lab Group 1 only
Tuesday
29-01-2019
14:00 to 14:30
Mathematical Institute
Lecture Theatre C
Dr Jacqueline Nairn

Lecture L2: Module Introduction & Introduction to Practical 1 Lab Skills
2018-9_BL2306_L2
Lab Group 2 only
Tuesday
29-01-2019
14:30 to 17:00
Chemistry
Purdie Lab
Dr Jacqueline Nairn

Practical P2: Practical 1 - Lab Skills
2018-9_BL2306_P2
Lab Group 2 only
Thursday
31-01-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Tracey Gloster

Lecture L3: The building blocks of life I
2018-9_BL2306_L3
Friday
01-02-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Tracey Gloster

Lecture L4: The building blocks of life II
2018-9_BL2306_L4

Semester 2: Week 2

DATE & TIMEVENUESTAFFEVENT
Wednesday
06-02-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Tracey Gloster

Lecture L5: The building blocks of life III
2018-9_BL2306_L5
Thursday
07-02-2019
09:00 to 10:00
Online
Dr Tracey Gloster

Other O1: The building blocks of life IV
2018-9_BL2306_O1
Please view this lecture in your own time & prepare questions for Friday 8th Feb
Friday
08-02-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Tracey Gloster

Lecture L6: Introduction to Practical 2 Visualising Molecules
2018-9_BL2306_L6

Semester 2: Week 3

DATE & TIMEVENUESTAFFEVENT
Monday
11-02-2019
14:00 to 17:00
Bute Building
PC lab
Dr Tracey Gloster

Practical P3: Practical 2 - Visualising Molecules
2018-9_BL2306_P3
Tuesday
12-02-2019
14:00 to 17:00
Bute Building
PC lab
Dr Tracey Gloster

Practical P4: Practical 2 - Visualising Molecules
2018-9_BL2306_P4
Thursday
14-02-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Tracey Gloster

Lecture L7: The building blocks of life V
2018-9_BL2306_L7
Friday
15-02-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Tracey Gloster

Lecture L8: Revision - the building blocks of life
2018-9_BL2306_L8

Semester 2: Week 4

DATE & TIMEVENUESTAFFEVENT
Wednesday
20-02-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Carlos Penedo-Esteiro

Lecture L9: Enzyme kinetics I
2018-9_BL2306_L9
Thursday
21-02-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Carlos Penedo-Esteiro

Lecture L10: Enzyme kinetics II
2018-9_BL2306_L10
Friday
22-02-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Tracey Gloster
Dr Carolin Kosiol
Lecture L11: Introduction to Practical 3 Lysozyme Study
2018-9_BL2306_L11

Semester 2: Week 5

DATE & TIMEVENUESTAFFEVENT
Monday
25-02-2019
14:00 to 17:00
Bute Building
PC lab
Dr Tracey Gloster
Dr Carolin Kosiol
Practical P5: Practical 3 - Lysozyme Study
2018-9_BL2306_P5
Tuesday
26-02-2019
14:00 to 17:00
Bute Building
PC lab
Dr Tracey Gloster
Dr Carolin Kosiol
Practical P6: Practical 3 - Lysozyme Study
2018-9_BL2306_P6
Thursday
28-02-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Carlos Penedo-Esteiro

Lecture L12: Enzyme kinetics III
2018-9_BL2306_L12
Friday
01-03-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Carlos Penedo-Esteiro

Lecture L13: Enzymes: Mechanism of Action
2018-9_BL2306_L13

Semester 2: Week 6

DATE & TIMEVENUESTAFFEVENT
Wednesday
06-03-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Carlos Penedo-Esteiro

Lecture L14: Revision - Enzyme Kinetics
2018-9_BL2306_L14
Thursday
07-03-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Jacqueline Nairn

Lecture L15: Metabolic Control Strategies I
2018-9_BL2306_L15
Friday
08-03-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Carlos Penedo-Esteiro

Lecture L16: Introduction to Practical 4 - Enzyme kinetics
2018-9_BL2306_L16

Semester 2: Week 7

DATE & TIMEVENUESTAFFEVENT
Monday
11-03-2019
14:00 to 17:00
Chemistry
Purdie Lab
Dr Carlos Penedo-Esteiro

Practical P7: Practical 4 -Enzyme kinetics
2018-9_BL2306_P7
Tuesday
12-03-2019
14:00 to 17:00
Chemistry
Purdie Lab
Dr Carlos Penedo-Esteiro

Practical P8: Practical 4 -Enzyme kinetics
2018-9_BL2306_P8
Thursday
14-03-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Jacqueline Nairn

Lecture L17: Metabolic Control Strategies II
2018-9_BL2306_L17
Friday
15-03-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Jacqueline Nairn

Lecture L18: How to Study Metabolism & Metabolomics
2018-9_BL2306_L18

Reading Week: 16-Mar-2019 to 31-Mar-2019

Semester 2: Week 8

DATE & TIMEVENUESTAFFEVENT
Wednesday
03-04-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Jacqueline Nairn

Lecture L19: Metabolic Control
2018-9_BL2306_L19
Bring your laptop
Thursday
04-04-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Jacqueline Nairn

Lecture L20: Glycolysis and Gluconeogenesis
2018-9_BL2306_L20
Friday
05-04-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Jacqueline Nairn

Lecture L21: Introduction to Practical 5 - Protein purification
2018-9_BL2306_L21

Semester 2: Week 9

DATE & TIMEVENUESTAFFEVENT
Monday
08-04-2019
14:00 to 17:00
Chemistry
Purdie Lab
Dr Jacqueline Nairn

Practical P9: Practical 5 - Protein purification
2018-9_BL2306_P9
Tuesday
09-04-2019
14:00 to 17:00
Chemistry
Purdie Lab
Dr Jacqueline Nairn

Practical P10: Practical 5 - Protein purification
2018-9_BL2306_P10
Thursday
11-04-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Jacqueline Nairn

Lecture L22: Link between Glycolysis and TCA
2018-9_BL2306_L22
Friday
12-04-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Jacqueline Nairn

Lecture L23: TCA and ETC
2018-9_BL2306_L23

Semester 2: Week 10

DATE & TIMEVENUESTAFFEVENT
Wednesday
17-04-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Jacqueline Nairn

Lecture L24: Fatty Acid Metabolism and Metabolism Revision
2018-9_BL2306_L24
Thursday
18-04-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Rafael Guimaraes da Silva

Lecture L25: Purine/Pyrimidine Metabolism I
2018-9_BL2306_L25
Friday
19-04-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Rafael Guimaraes da Silva

Lecture L26: Purine/Pyrimidine Metabolism II
2018-9_BL2306_L26

Semester 2: Week 11

DATE & TIMEVENUESTAFFEVENT
Monday
22-04-2019
14:00 to 17:00
Chemistry
Purdie Lab
Dr Jacqueline Nairn

Practical P11: Practical 6 - SDS PAGE and Metabolomic poster session
2018-9_BL2306_P11
Bring your laptop
Tuesday
23-04-2019
14:00 to 17:00
Chemistry
Purdie Lab
Dr Jacqueline Nairn

Practical P12: Practical 6 - SDS PAGE and Metabolomic poster session
2018-9_BL2306_P12
Bring your laptop
Thursday
25-04-2019
09:00 to 10:00
Physics Building
Lecture Theatre B
Dr Rafael Guimaraes da Silva

Lecture L27: Amino acid metabolism
2018-9_BL2306_L27
Friday
26-04-2019
09:00 to 10:00
Purdie Building
Lecture Theatre B
Dr Rafael Guimaraes da Silva
Dr Jacqueline Nairn
Lecture L28: Revision of RGdS material & BL2306 exam preparation
2018-9_BL2306_L28
Data Sources: information in this online module handbook is gathered from several sources.
Small footnote marks beside content, or by section titles indicate the source.
* University of St Andrews Module Catalogue
School of Biology Symbiosis Database (module organisers only)
University of St Andrews MMS (St Andrews users only)

BL2306: Assessment

2-hour Written Examination = 50%, Coursework = 50%*

Assessment:
Practical 2 Visualising Molecules
Due by:
13/02/2019 14:00
Feedback due by:
06/03/2019 14:00
Type:
Single Upload
Weight:
0%
Assessment:
Practical 3 Lysozyme Study
Due by:
27/02/2019 14:00
Feedback due by:
20/03/2019 14:00
Type:
Single Upload
Weight:
0%
Assessment:
Practical 4 Enzyme Kinetics
Due by:
18/03/2019 14:00
Feedback due by:
08/04/2019 14:00
Type:
Turnitin
Weight:
50%
Assessment:
Practical 5 Protein Purification
Due by:
15/04/2019 14:00
Feedback due by:
06/05/2019 14:00
Type:
Turnitin
Weight:
50%
Assessment:
Practical 6 SDS PAGE + Metabolomic Poster
Due by:
24/04/2019 14:00
Feedback due by:
15/05/2019 14:00
Type:
Single Upload
Weight:
0%

(MMS assessment data cached: 15 February 2019 23:20:13.)


The following related information applies to all Biology modules:

School of Biology Marking Criteria: See School of Biology Undergraduate Handbook
Late submission of continuous assessment work:

All late submissions of coursework that do not require electronic submission should be made via the late submissions box in the Biomolecular Science Building (beside the Teaching Office)
Exam details: See School of Biology Undergraduate Handbook
Exam timetable: see http://www.st-andrews.ac.uk/students/academic/examinations/examtimetablescurrent/
Expected attendance: See School of Biology Undergraduate Handbook for detailed attendance requirements.
Good Academic Practice & Avoiding Academic Misconduct: See School of Biology Undergraduate Handbook
University Student Handbook: University Student Handbook
School and University regulations in the School and University Undergraduate Handbook relating to absence reporting, penalties and rules for late submission of work, extensions for coursework, return of coursework, S-coding, good academic practice and Academic Alerts.: School of Biology Undergraduate Handbook University Student Handbook
Data Sources: information in this online module handbook is gathered from several sources.
Small footnote marks beside content, or by section titles indicate the source.
* University of St Andrews Module Catalogue
School of Biology Symbiosis Database (module organisers only)
University of St Andrews MMS (St Andrews users only)

Who to ask

(Information in this section applies to all Biology Modules)

Questions about different aspects of the module should be directed to different people:

Questions about Contact
General teaching matters Biology Teaching Office ( bioteach@st-andrews.ac.uk )
Rescheduled or cancelled events Check your University email
Lecture or practical content The lecturer who presented the material
Completing assessed practical assignments The lecturer who set the assignment
Completing assessments Module Organiser (Dr Jacqueline Nairn jn37@st-andrews.ac.uk)
Marking on continuous assessment The Demonstrator or Module Organiser (Dr Jacqueline Nairn jn37@st-andrews.ac.uk)
Marking on exams Module Organiser (Dr Jacqueline Nairn jn37@st-andrews.ac.uk)
Rearranging practical days Grant Brown
Absence and/or extensions Module Organiser (Dr Jacqueline Nairn jn37@st-andrews.ac.uk) and the Biology Teaching Office ( bioteach@st-andrews.ac.uk )

Difficulties with academic progress which impact more than one module:

Year Coordinator

See School of Biology Undergraduate student handbook for list: http://biology.st-andrews.ac.uk/documents/UndergraduateHandbook.pdf

Overall performance, progress or future directions:

Advisor of Studies

Disability:

Disability Coordinator (Dr Jacqueline Nairn jn37@st-andrews.ac.uk)

For advice and support on any issue e.g. academic, financial, international, personal or health matters, or if you are unsure of who to go to for help:

Advice & Support Centre

Address: 79 North Street, St Andrews

Email: theasc@st-andrews.ac.uk

Web: https://www.standrews.ac.uk/ask-a-question/

Tel: 01334 462020

University assistance with urgent matters out of office hours:

Tel: 01334 476161

Web: https://www.st-andrews.ac.uk/students/advice/counselling/incrisis/

Biology Teaching Office:

We are happy to hear from you about teaching matters. The School of Biology Teaching Office is open Monday to Friday 09.00 - 13.00 and 14.00 - 17.00. School of Biology staff will respond to your emails during these hours. Our team will provide a response to you within three working days.

Biology Teaching Office, The Biology Hive, New Technology Centre, University of St Andrews, North Haugh, St Andrews, Fife KY16 9SR

Email: bioteach@st-andrews.ac.uk

Tel: 01334 463602/3566

BL2306: Contributing Staff

Dr Jacqueline Nairn

Dr Jacqueline Nairn
(Module Organiser)

Senior Lecturer jn37@st-andrews.ac.uk
Dr Tracey GlosterDr Tracey GlosterLecturertmg@st-andrews.ac.uk
Dr Rafael Guimaraes da SilvaDr Rafael Guimaraes da SilvaResearch Fellowrgds@st-andrews.ac.uk
Dr Carolin KosiolDr Carolin KosiolLecturerck202@st-andrews.ac.uk
Dr Jacqueline NairnDr Jacqueline Nairn
(Module Organiser)
Senior Lecturer jn37@st-andrews.ac.uk
Dr Carlos Penedo-EsteiroLecturerjcp10@st-andrews.ac.uk
Data Sources: information in this online module handbook is gathered from several sources.
Small footnote marks beside content, or by section titles indicate the source.
* University of St Andrews Module Catalogue
School of Biology Symbiosis Database (module organisers only)
University of St Andrews MMS (St Andrews users only)

BL2306: Learning Outcomes

Students completing module BL2306 successfully should be able to:

  • Explain the chemistry and structure of the major biological macromolecules and how that determines their biological properties
  • Mine, manipulate and interpret data from small molecule and macromolecular databases
  • Use molecular viewers
  • Explain the chemical and thermodynamic principles underlying biological catalysis and the role of enzymes and other proteins in determining the function and fate of cells and organisms
  • Conduct experiments to explore enzyme activity
  • Demonstrate a critical understanding of essential features of cell metabolism and its control, including topics such as energy and signal transduction, respiration and photosynthesis
  • Appreciate the diversity of small molecules within cells, their dynamic concentration range and how to study these, both individually and as part of a metabolome
Data Sources: information in this online module handbook is gathered from several sources.
Small footnote marks beside content, or by section titles indicate the source.
* University of St Andrews Module Catalogue
School of Biology Symbiosis Database (module organisers only)
University of St Andrews MMS (St Andrews users only)

BL2306: Acquired Skills

Practical Skills

  • Biomolecule isolation/characterisation
  • Buffers
  • Chromatography
  • Database interogation
  • Enzyme assay
  • Kinetic data analysis
  • Molecular viewer software
  • Pipetting
  • Protein characterisation
  • Protein purification
  • Protein quantitation

Transferable Skills

  • Preparing group poster on given topic
  • Q+A poster session
  • "Full" practical write-up (Intro, Methods, Results, Discussion)
  • "Short" practical write-up (e.g. completed worksheet)
  • Handout (for presentation or poster)
  • Critically evaluating sources/information
  • Finding information on the web
  • Finding literature
  • Referencing
  • Searching databases
  • Sourcing figures/tables
  • Lab safety awareness
  • Problem-solving questions
  • Calculations/equations
  • Concentrations
  • Data analysis
  • Data presentation
  • Dilutions
  • Draw a line of best fit
  • Produce graphs/figures
  • Produce tables
  • SI units
  • Use Excel
  • Use R or R Studio
  • Working in pairs/small groups
Data Sources: information in this online module handbook is gathered from several sources.
Small footnote marks beside content, or by section titles indicate the source.
* University of St Andrews Module Catalogue
School of Biology Symbiosis Database (module organisers only)
University of St Andrews MMS (St Andrews users only)

Policies

(Information in this section applies to all Biology Modules)