Students

MOLS8211 – Protein Discovery and Analysis

2026 – Session 1, In person-scheduled-weekday, North Ryde

General Information

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Unit convenor and teaching staff Unit convenor and teaching staff
Paul Haynes
Jessica Boomer
Credit points Credit points
10
Prerequisites Prerequisites
Admission to GradDipRes or GradCertRes or (BMOL6202 and BMOL6201 and Admission to GradDipBiotech or MBiotech)
Corequisites Corequisites
Co-badged status Co-badged status
Unit description Unit description

This unit outlines molecular principles underlying developments in protein science and research. As well as detailing separation technologies, the course addresses structural biology, protein analysis and bioinformatics. Practices common in the biotechnology and pharmaceutical industries to isolate recombinant proteins are emphasized. Protein purification and analysis methods are introduced and discussed in detail. Molecular properties leading to the 3D shape of proteins are explored, using a range of computer modelling techniques. 

 

Important Academic Dates

Information about important academic dates including deadlines for withdrawing from units are available at https://www.mq.edu.au/study/calendar-of-dates

Learning Outcomes

On successful completion of this unit, you will be able to:

  • ULO1: Design appropriate procedures for isolating and purifying proteins.
  • ULO2: Demonstrate understanding of the chemical properties of proteins, and how they these relate to protein purification and function.
  • ULO3: Use various software approaches to visualize and analyze 3D structural features of proteins.
  • ULO4: Describe protein topology forms and architectures, and recognize how these are encoded within a primary sequence.
  • ULO5: Extract and interpret information from relevant literature sources regarding the structure and function of proteins.

General Assessment Information

To pass this unit you need to: Achieve a total mark equal to or greater than 50% across all assessments.

We strongly encourage all students to actively participate in all learning activities. Regular engagement is crucial for your success in this unit, as these activities provide opportunities to deepen your understanding of the material, collaborate with peers, and receive valuable feedback from instructors, to assist in completing the unit assessments. Your active participation not only enhances your own learning experience but also contributes to a vibrant and dynamic learning environment for everyone.

Late Submission Policy

  • 5% penalty per day: If you submit your assessment late, 5% of the total possible marks will be deducted for each day (including weekends), up to 7 days.
    • Example 1 (out of 100): If you score 85/100 but submit 20 hours late, you will lose 5 marks and receive 80/100.
    • Example 2 (out of 30): If you score 27/30 but submit 1 day late, you will lose 1.5 marks and receive 25.5/30.
  • After 7 days: Submissions more than 7 days late will receive a mark of 0.
  • Extensions:
    • Automatic short extension: Some assessments are eligible for automatic short extension. You can only apply for an automatic short extension before the due date.
    • Special Consideration: If you need more time due to serious issues and for any assessments that are not eligible for Short Extension, you must apply for Special Consideration.

Need help? Review the Special Consideration page HERE

Assessments where Late Submissions will be accepted

  • Practical report - Standard Late Penalty applies

 Special Consideration Policy

The Special Consideration Policy aims to support students who have been impacted by short-term circumstances or events that are serious, unavoidable and significantly disruptive, and which may affect their performance in assessment.

 

Descriptions of Assessment Activities and other information

  • Submission of Assessments – practical report and project presentation and components to be submitted via Turnitin link on the iLearn site.
  • Assessment Criteria –  marking rubrics are available on the iLearn site

Assessment Tasks

Name Weighting Hurdle Due Groupwork/Individual Short Extension AI Approach
Pet Protein Purification Project 40% No 07/06/2026 Individual Yes Open
Final exam 40% No Examination Period Individual No Observed
Practical report 20% No 04/05/2026 Individual Yes Open

Pet Protein Purification Project

Assessment Type 1: Portfolio
Indicative Time on Task 2: 35 hours
Due: 07/06/2026
Weighting: 40%
Groupwork/Individual: Individual
Short extension 3: Yes
AI Approach: Open

Each student will be assigned a 'pet protein' of biochemical or medical importance as a case study throughout this Unit. The project includes making and presenting a real-life 3-D physical model of the protein structure.


On successful completion you will be able to:
  • Demonstrate understanding of the chemical properties of proteins, and how they these relate to protein purification and function.
  • Use various software approaches to visualize and analyze 3D structural features of proteins.
  • Describe protein topology forms and architectures, and recognize how these are encoded within a primary sequence.
  • Extract and interpret information from relevant literature sources regarding the structure and function of proteins.

Final exam

Assessment Type 1: Examination
Indicative Time on Task 2: 35 hours
Due: Examination Period
Weighting: 40%
Groupwork/Individual: Individual
Short extension 3: No
AI Approach: Observed

An invigilated formal examination covering all aspects of the scientific content of the unit.


On successful completion you will be able to:
  • Design appropriate procedures for isolating and purifying proteins.
  • Demonstrate understanding of the chemical properties of proteins, and how they these relate to protein purification and function.
  • Use various software approaches to visualize and analyze 3D structural features of proteins.
  • Describe protein topology forms and architectures, and recognize how these are encoded within a primary sequence.

Practical report

Assessment Type 1: Written Submission
Indicative Time on Task 2: 17 hours
Due: 04/05/2026
Weighting: 20%
Groupwork/Individual: Individual
Short extension 3: Yes
AI Approach: Open

Students will complete a protein purification activity and write a report including the techniques used and the results achieved.


On successful completion you will be able to:
  • Design appropriate procedures for isolating and purifying proteins.
  • Demonstrate understanding of the chemical properties of proteins, and how they these relate to protein purification and function.
  • Describe protein topology forms and architectures, and recognize how these are encoded within a primary sequence.

1 If you need help with your assignment, please contact:

  • the academic teaching staff in your unit for guidance in understanding or completing this type of assessment
  • Academic Success for academic skills support.

2 Indicative time-on-task is an estimate of the time required for completion of the assessment task and is subject to individual variation.

3 An automatic short extension is available for some assessments. Apply through the Service Connect Portal.

Delivery and Resources

Class scheduling

Lectures and Workshops both begin in week 1 of semester. Weekly lectures will be delivered in person, with recordings made available via iLearn for revision purposes. Weekly workshops will be held in person, and will include worksheets and other activities to reinforce the learning of the lecture content.

Lectures: 2 hrs Wednesdays 12-2pm 14SCO T5 .

Workshops: 1 hr Wednesday 3pm – 4pm 01CC 214

Our practical class will be held in the 14ER 130/150 laboratories during semester break, Tuesday 14th of April to Thursday 16th of April.

Methods of Communication

The unit convenor will communicate mainly via Discussion Forum and Announcements on the iLearn site, and also via emails to students MQ email addresses. Personal email addresses must not be used.

 

Unit Schedule

 

Lectures 2 hrs, Wednesdays 12-2 14SCO T5; Workshops 1 hr,  Wednesdays 3-4 01CC 214; Practical class April 14-16th 14ER 130/150.

Week

Date

Lecture Topic

Workshop Subject

1

 Feb 25

1 - Introduction to Protein Structure

2 - Protein functional groups

primary sequence and structure of proteins

Pet Protein Allocation

2

Mar4

3 - Isolating proteins

4 - protein staining

Database information (20 min)

and quiz 1 (not assessed, lectures 1-4, 10 questions)

3

Mar 11

5 – Protein purification I

6 – Protein purification II

protein purification worksheet

4

Mar 18

7-8 Protein crystallography (Bhumika Shah)

Protein crystallography

 

5

Mar 25

9-10 Protein NMR (Rob Willows)

protein NMR

6

April 1

11-12 Cryo EM (Rob Willows)

Quiz no 2 – (not assessed, 20 questions, functional groups, isolation and purification, NMR, crystallography, cryo EM.

 

Apr 8

Midsem break week 1

Midsem break week 1

 

 Apr 15

Practical Class Apr 14-16

Midsem break week 2

 7

 Apr 22

13 – Folding domains and motifs

14 – Membrane proteins

 folds, topologies and crystallography worksheet

8

 Apr 29

15 – Protein folding

16 – Protein secondary structures

molecular graphics using Pymol.

Working with the program and completing an assessable worksheet.

9

 May 6

17 - Protein dynamics

18 - bioinformatics

protein folding, folds and domains worksheet

 

10

 May 13

19 – UV and CD spectra

20 - Spectroscopic methods

CD worksheet questions. Revision and class demo of alphafold

11

 May 20

21 - Mass spectrometry

22 - Glycomics

Quiz no 3 (folding, structures, domains, motifs, membranes, dynamics, bioinformatics, UV and CD spectra, mass spectrometry, glycomics, not assessable, 20 questions)

12

 May 27

Pet protein presentations

Pet protein presentations

13

 Jun 3

Pet proteins (reserved if needed)

Pet protein presentations (reserved)

 

 

 

 

 

Policies and Procedures

Macquarie University policies and procedures are accessible from Policy Central (https://policies.mq.edu.au). Students should be aware of the following policies in particular with regard to Learning and Teaching:

Students seeking more policy resources can visit Student Policies (https://students.mq.edu.au/support/study/policies). It is your one-stop-shop for the key policies you need to know about throughout your undergraduate student journey.

To find other policies relating to Teaching and Learning, visit Policy Central (https://policies.mq.edu.au) and use the search tool.

Student Code of Conduct

Macquarie University students have a responsibility to be familiar with the Student Code of Conduct: https://students.mq.edu.au/admin/other-resources/student-conduct

Results

Results published on platform other than eStudent, (eg. iLearn, Coursera etc.) or released directly by your Unit Convenor, are not confirmed as they are subject to final approval by the University. Once approved, final results will be sent to your student email address and will be made available in eStudent. For more information visit connect.mq.edu.au or if you are a Global MBA student contact globalmba.support@mq.edu.au

Academic Integrity

At Macquarie, we believe academic integrity – honesty, respect, trust, responsibility, fairness and courage – is at the core of learning, teaching and research. We recognise that meeting the expectations required to complete your assessments can be challenging. So, we offer you a range of resources and services to help you reach your potential, including free online writing and maths support, academic skills development and wellbeing consultations.

Student Support

Macquarie University provides a range of support services for students. For details, visit http://students.mq.edu.au/support/

Academic Success

Academic Success provides resources to develop your English language proficiency, academic writing, and communication skills.

The Library provides online and face to face support to help you find and use relevant information resources. 

Student Services and Support

Macquarie University offers a range of Student Support Services including:

Student Enquiries

Got a question? Ask us via the Service Connect Portal, or contact Service Connect.

IT Help

For help with University computer systems and technology, visit http://www.mq.edu.au/about_us/offices_and_units/information_technology/help/

When using the University's IT, you must adhere to the Acceptable Use of IT Resources Policy. The policy applies to all who connect to the MQ network including students.

Changes from Previous Offering

Lecture contents have been revised and updated to keep up with the latest developments in the field. Although no marks are associated with attendance, all activities provide students with key content designed to help them understand the content and complete the assessments.

We value student feedback to be able to continually improve the way we offer our units. As such we encourage students to provide constructive feedback via student surveys, to the teaching staff directly, or via the FSE Student Experience & Feedback link in the iLearn page. Student feedback from the previous offering of this unit was strongly positive overall, with students pleased with the clarity around assessment requirements and the level of support from teaching staff. We will continue to strive to improve the level of support and the level of student engagement.

Changes since First Published

Date Description
23/03/2026 Date format updated

Unit information based on version 2026.01R of the Handbook