ECTS credits ECTS credits: 4.5
ECTS Hours Rules/Memories Student's work ECTS: 74.25 Hours of tutorials: 2.25 Expository Class: 18 Interactive Classroom: 18 Total: 112.5
Use languages Spanish (100%)
Type: Ordinary Degree Subject RD 1393/2007 - 822/2021
Departments: Biochemistry and Molecular Biology, Organic Chemistry
Areas: Biochemistry and Molecular Biology, Organic Chemistry
Center Faculty of Biology
Call: Second Semester
Teaching: Sin docencia (Extinguida)
Enrolment: No Matriculable
- List the most common strategies and methods in protein engineering.
- Identify the practical applications of protein engineering in biotechnology.
- Distinguish the methods of representing biomolecular structures and know how to use the software for their analysis.
Identify the factors that influence protein folding.
Classes, both lectures and seminars, will be face-to-face. Exceptionally, and with prior notification to the students, tutorials and computer classes may be hybrid (class and MS Teams) or totally virtual (MS Teams platform).
Expository Classes
- Introduction. Applications of protein engineering: food industry, detergents, environmental applications, medical applications, biopolymers, nanobiotechnological applications.
- Protein folding: thermodynamics and kinetics of folding. Folding in vivo.
- Protein determination methods. Structural databases and software for representation of biomolecule structures.
- De novo protein design and synthesis: rational methods, incorporation of non-natural amino acids, assembly of tertiary structures from secondary structure elements, etc. Bioconjugation.
- Representative cases of modified proteins. Oxidation resistant proteases, Insulins, TPA, GFPs, FDH, etc.
- Random methods of directed protein evolution
- Methods of directed evolution of proteins by recombination.
- Rational protein design: structure-based targeted mutations
- Rational design of "de novo" proteins
Seminars
- Analysis of real cases in peptide and protein design with diverse applications.
Computer room
- The use of representative programs used for the representation and study of biomolecule structures will be covered during the two computer practice sessions. Use of the UCSF Chimera program (https://www.cgl.ucsf.edu/chimera/) and/or PyMol (https://pymol.org/2/). Use of structural databases (PDB, https://www.rcsb.org/).
- Various online tools will also be presented, such as the AGADIR server (http://agadir.crg.es/ ), SeqOPT (http://mml.spbstu.ru/services/seqopt/) and the ROSIE portal (https://rosie.graylab.jhu.edu/ ).
Group tutoring
- Reinforcement of the contents of the subject through the solution of problems posed by the students, presentation or discussion of topics related to the subject in the context of biotechnology.
Basic
- V. Köhler (Ed.) Protein Design, Metods and Applications in Methods in Molecular Biology, 2014 Humana Press.
- K. J. Jensen (Ed.). Peptide and Protein Design for Biopharmaceutical Applications, 2009 John Wiley & Sons.
Complementary
- E Buxbaum, Fundamentals of Protein Structure and Function, 2007 Springer.
- C. Köhrer, U. L. RajBhandary (Eds.). Protein Engineering in Nucleic Acids and Molecular Biology series no. 22, 2009, Springer.
- P. Kaumaya, Protein Engineering, 2012, InTech.
Basic and General
CG1 - Know the most important concepts, methods, and results of the different branches of Biotechnology.
CG2 - Apply the theoretical-practical knowledge acquired in the approach to problems and the search for solutions in both academic and professional contexts.
CG3 - Know how to obtain and interpret relevant information and results and draw conclusions on issues related to Biotechnology.
CG4 - Be able to transmit information both in writing and orally and to discuss ideas, problems, and solutions related to Biotechnology, before the general or specialized public.
CG5 - Study and learn autonomously, with the organization of time and resources, new knowledge and techniques in Biotechnology and acquire the ability to work as a team.
CB1 - That the students have demonstrated to possess and understand knowledge in an area of study that begins at the base of general secondary education and is usually found at a level that, although supported by advanced textbooks, also includes some aspects involving knowledge from the forefront of their field of study
CB2 - That students know how to apply their knowledge to their work or vocation in a professional way and possess the competencies that are usually demonstrated through the elaboration and defense of arguments and the resolution of problems within their area of study
CB3 - That the students before them have the ability to collect and interpret relevant data (usually within their area of study) to make judgments that include a reflection on relevant issues of a social, scientific or ethical nature
CB4 - That students can transmit information, ideas, problems and solutions to an audience both specialist and non - specialist
CB5 - That the students have developed those learning skills necessary to undertake further studies with a high degree of autonomy .
Transversal
CT1 - Think in an integrated way and approach problems from different perspectives.
CT2 - Search, process, analyze, and synthesize information from various sources.
CT3 - Organize and plan your work.
CT4 - Interpret result s experimental and identify consistent and inconsistent elements.
CT7 - Maintain an ethical commitment.
CT6 - Critical reasoning.
Specific
CE2 - Understand and know how to apply the physical-chemical principles of two biological processes with application in Biotechnology, as well as the main tools used to investigate them.
CE3 - Know how to apply the instrumental techniques and work protocols in a laboratory, applying the regulations and techniques related to safety and hygiene, waste management and quality.
- The expository and interactive teaching (including computer practices) will be face-to-face. Exceptionally, classroom teaching may be combined with virtual teaching up to a maximum of 10% of the total hours of the subject and in the case of practical teaching carried out by telematic means it could reach 25%.
- Lectures. The professor will develop the content of the program using exercises and practical examples that illustrate the concepts explained. Explanations will be combined with materials from the bibliography, as well as references from scientific journals.
- Seminars and group tutorials. Real cases of peptide and protein design will be analyzed. Students will be encouraged to participate actively in the seminars throughout the course, being this participation one of the evaluation criteria. Problems will be posed for the student to try to solve them autonomously, delivering their solution to the faculty in advance of the seminar classes in which they will be solved. In these classes, students will present their solutions, and the teacher will be in charge of resolving any doubts and difficulties that may arise. Occasionally, in the seminars will also be proposed short exercises to be solved on the spot, which will be taken into account in the evaluation.
- Individual tutorials. The tutorials will be mainly face-to-face, although they may be partially carried out virtually. A closer follow-up of the student's work will be done, reinforcing the official teaching with personal tutorials according to the needs of each student.
- Practical classes in the computer classroom. Two sessions in which students will become familiar with various tools used for the structural representation of biomolecules, the most relevant databases, as well as some software for protein design. The computer practices may be in virtual mode, in any case with a maximum of 25% of the practical hours of the subject.
- Virtual classroom (Moodle). The course will have a virtual classroom where all the teaching support material of the course, calendars, links to pages of interest, etc. will be included. This platform also contains discussion forums and internal mail which provides excellent communication between teachers and students.
The student's overall grade in the course will result from a weighted average between the grades obtained by his performance in the final exam (70%), and the grade derived from the continuous evaluation of the work in the seminars and tutorials (30%). These same instruments will be used to evaluate the competences of the course, with particular emphasis on the specific competences of the course.
The exam will consist of short questions and exercises in which the protein design concepts explained during the course will be applied.
Continuous evaluation will be carried out by combining face-to-face activities, such as presentations or resolution of questions in class, with online activities using the resources of the institutional platforms (Virtual Classroom-Moodle and Microsoft Teams).
For cases of fraudulent performance of exercises or tests, the provisions of the "Normativa de avaliación do rendemento académico dos estudantes e de revisión de cualificacións" will apply, which can be consulted at the following link: https://bit.ly/3btFiUI.
Student work 75 h
It is important to highlight that the student's personal work has to be continued throughout the subject, since it is a subject in which the contents that are taught as the program progresses are based on the knowledge acquired in the previous topics. .
Jose Manuel Martinez Costas
- Department
- Biochemistry and Molecular Biology
- Area
- Biochemistry and Molecular Biology
- Phone
- 881815734
- jose.martinez.costas [at] usc.es
- Category
- Professor: University Professor
Marco Eugenio Vazquez Sentis
- Department
- Organic Chemistry
- Area
- Organic Chemistry
- Phone
- 881815738
- eugenio.vazquez [at] usc.es
- Category
- Professor: University Professor
Maria Valentina Malave Fernandez
- Department
- Organic Chemistry
- Area
- Organic Chemistry
- mariav.malave [at] usc.es
- Category
- Xunta Pre-doctoral Contract
Daniel Abella López
- Department
- Biochemistry and Molecular Biology
- Area
- Biochemistry and Molecular Biology
- daniel.abella.lopez [at] usc.es
- Category
- Ministry Pre-doctoral Contract
Adrián López Teijeiro
- Department
- Biochemistry and Molecular Biology
- Area
- Biochemistry and Molecular Biology
- adrianlopez.teijeiro [at] usc.es
- Category
- Ministry Pre-doctoral Contract
Paula Sánchez Gascón
- Department
- Biochemistry and Molecular Biology
- Area
- Biochemistry and Molecular Biology
- paulasanchez.gascon [at] usc.es
- Category
- USC Pre-doctoral Contract
| Monday | ||
|---|---|---|
| 09:00-10:00 | Grupo /CLE_01 | Classroom 08. Louis Pasteur |
| Tuesday | ||
| 09:00-10:00 | Grupo /CLE_01 | Classroom 08. Louis Pasteur |
| 05.24.2024 10:00-14:00 | Grupo /CLE_01 | Classroom 04: James Watson and Francis Crick |
| 07.05.2024 10:00-14:00 | Grupo /CLE_01 | Classroom 03. Carl Linnaeus |
| Teacher | Language |
|---|---|
| MARTINEZ COSTAS, JOSE MANUEL | Spanish |
| VAZQUEZ SENTIS, MARCO EUGENIO | Spanish |
| Teacher | Language |
|---|---|
| Abella López, Daniel | Spanish |
| López Teijeiro, Adrián | Spanish |
| MALAVE FERNANDEZ, MARIA VALENTINA | Spanish |
| MARTINEZ COSTAS, JOSE MANUEL | Spanish |
| Sánchez Gascón, Paula | Spanish |
| VAZQUEZ SENTIS, MARCO EUGENIO | Spanish |
| Teacher | Language |
|---|---|
| Abella López, Daniel | Spanish |
| López Teijeiro, Adrián | Spanish |
| MALAVE FERNANDEZ, MARIA VALENTINA | Spanish |
| MARTINEZ COSTAS, JOSE MANUEL | Spanish |
| Sánchez Gascón, Paula | Spanish |
| VAZQUEZ SENTIS, MARCO EUGENIO | Spanish |
| Teacher | Language |
|---|---|
| Abella López, Daniel | Spanish |
| López Teijeiro, Adrián | Spanish |
| MARTINEZ COSTAS, JOSE MANUEL | Spanish |
| Sánchez Gascón, Paula | Spanish |
| VAZQUEZ SENTIS, MARCO EUGENIO | Spanish |
| Teacher | Language |
|---|---|
| MARTINEZ COSTAS, JOSE MANUEL | Spanish |
| VAZQUEZ SENTIS, MARCO EUGENIO | Spanish |
| Teacher | Language |
|---|---|
| MARTINEZ COSTAS, JOSE MANUEL | Spanish |
| VAZQUEZ SENTIS, MARCO EUGENIO | Spanish |
| Teacher | Language |
|---|---|
| MARTINEZ COSTAS, JOSE MANUEL | Spanish |
| VAZQUEZ SENTIS, MARCO EUGENIO | Spanish |
| Teacher | Language |
|---|---|
| MARTINEZ COSTAS, JOSE MANUEL | Spanish |
| VAZQUEZ SENTIS, MARCO EUGENIO | Spanish |
| Teacher | Language |
|---|---|
| MARTINEZ COSTAS, JOSE MANUEL | Spanish |
| VAZQUEZ SENTIS, MARCO EUGENIO | Spanish |
| Teacher | Language |
|---|---|
| MARTINEZ COSTAS, JOSE MANUEL | Spanish |
| VAZQUEZ SENTIS, MARCO EUGENIO | Spanish |