Biomolecular Interactions - Bewerkingsoverzicht

R0905235: /* Examenvragen */

2025-06-18T08:07:10Z

Examenvragen

← Oudere versie		Versie van 18 jun 2025 10:07
Regel 14:		Regel 14:
	*#Give one example analyzing biomolecular interactions with FRET and explain.		*#Give one example analyzing biomolecular interactions with FRET and explain.
	*Prof. Ismail		*Prof. Ismail
	*#2 proteins are researched to see if they interact. The Yeast-two-hybid assay is positive but when an Affinity Purification is performed there is no interaction found. Give 3 reasons why this could happen and explain what you would do to test this (controles) (9/20)		*#Two proteins are researched to see if they interact. The Yeast-two-hybid assay is positive but when an Affinity Purification is performed there is no interaction found. Give 3 reasons why this could happen and explain what you would do to test this (controles) (9/20)
	*# A student wants to research the KD of a protein that is estimated around 1 picomolar. He read that for an ITC, concentrations of 10µM are recommended. He decides that ITC is a good technique to determine the KD ~~(do~~ you agree with the student? explain (2/20)		*# A student wants to research the KD of a protein that is estimated around 1 picomolar. He read that for an ITC, concentrations of 10µM are recommended. He decides that ITC is a good technique to determine the KD. Do you agree with the student? explain (2/20)
	*#Two Students perform an steady state Fluorescence Anisotropy assay on two proteins to determine the KD. They use the same buffer, same concentration and same machine, yet they both have different KD values. Give two reasons why this could be the case. (4/20)		*#Two Students perform an steady state Fluorescence Anisotropy assay on two proteins to determine the KD. They use the same buffer, same concentration and same machine, yet they both have different KD values. Give two reasons why this could be the case. (4/20)
	*#Explain how proteins can interact specifically with DNA. (5/20)		*#Explain how proteins can interact specifically with DNA. (5/20)
	*Dr Porras		*Dr. Porras
	*#Why is the stucture of carbohydrates important for its interactions. Give examples		*#Why is the stucture of carbohydrates important for its interactions. Give examples
	*#Compare carbohydrates with Amino Acids and Proteins		*#Compare carbohydrates with Amino Acids and Proteins

R0877106: /* 17 june 2025 */

2025-06-17T16:15:45Z

17 june 2025

← Oudere versie		Versie van 17 jun 2025 18:15
Regel 18:		Regel 18:
	*#Two Students perform an steady state Fluorescence Anisotropy assay on two proteins to determine the KD. They use the same buffer, same concentration and same machine, yet they both have different KD values. Give two reasons why this could be the case. (4/20)		*#Two Students perform an steady state Fluorescence Anisotropy assay on two proteins to determine the KD. They use the same buffer, same concentration and same machine, yet they both have different KD values. Give two reasons why this could be the case. (4/20)
	*#Explain how proteins can interact specifically with DNA. (5/20)		*#Explain how proteins can interact specifically with DNA. (5/20)
	*~~Prof~~ Porras		*Dr Porras
	*#Why is the stucture of carbohydrates important for its interactions. Give examples		*#Why is the stucture of carbohydrates important for its interactions. Give examples
	*#Compare carbohydrates with Amino Acids and Proteins		*#Compare carbohydrates with Amino Acids and Proteins

R0905235: /* Examenvragen */

2025-06-17T13:26:46Z

Examenvragen

@@ Regel 7: / Regel 7: @@
 == Examenvragen ==
 ===18 june 2024===
 *Prof. Van den Ende: protein/carbohydrate interactions can cause many diseases:

R0852347: /* Examenvragen */

2024-06-20T09:04:01Z

Examenvragen

@@ Regel 7: / Regel 7: @@
 == Examenvragen ==
 === 21 juni 2022 ===
 #Van den Ende: Protein-carbohydrate interactions can cause many diseases: what is the nature of these interactions? Give two examples of diseases with protein-carbohydrate interactions and say how you could stop their progress.

R0858269: /* Examenvragen */

2022-06-22T17:38:52Z

Examenvragen

← Oudere versie		Versie van 22 jun 2022 19:38
Regel 7:		Regel 7:

	== Examenvragen ==		== Examenvragen ==
			=== 21 juni 2022 ===
			#Van den Ende: Protein-carbohydrate interactions can cause many diseases: what is the nature of these interactions? Give two examples of diseases with protein-carbohydrate interactions and say how you could stop their progress.
			#Mizuno: Explain the principle of BRET. What are the advantages, disadvantages, similarities and differences with FRET? Give an example of the study of biomolecular interactions using BRET.
			#Ismail: Explain the phenomenon that proteins find their target so quickly (quicker than observed in 3D diffusion).
			#Robben: You want to study the interactome between virus and host (both genomes are known). Which strategy would you apply? How would you adapt the method to detect weak interactions?

	=== 17 juni 2020 (Corona exam: 3 hours)===		=== 17 juni 2020 (Corona exam: 3 hours)===
	#Van den Ende: protein-carbohydrate interactions can cause many diseases? What is the nature of these interactions? Give two examples of diseases with protein-carbohydrate interactions and say how you could stop their progress.		#Van den Ende: protein-carbohydrate interactions can cause many diseases? What is the nature of these interactions? Give two examples of diseases with protein-carbohydrate interactions and say how you could stop their progress.

R0653524: /* 17 juni 2020 (Corona exam: 3 hours) */

2021-08-10T19:54:15Z

17 juni 2020 (Corona exam: 3 hours)

← Oudere versie		Versie van 10 aug 2021 21:54
Regel 11:		Regel 11:
	#Mizuno: Given the equations describing kT, explain three factors affecting FRET efficiency and how (some of them) have to be taken into account when designing molecular sensors. Give two examples about molecular sensors using FRET, one with intermolecular and other with intramolecular FRET.		#Mizuno: Given the equations describing kT, explain three factors affecting FRET efficiency and how (some of them) have to be taken into account when designing molecular sensors. Give two examples about molecular sensors using FRET, one with intermolecular and other with intramolecular FRET.
	#Robben: you need to produce mouse monoclonal antibodies against the SARS-CoV-2. The spike protein is provided. Describe how would you proceed using phage display. What experimental measures would you take to ensure maximal affinity of the antibodies?		#Robben: you need to produce mouse monoclonal antibodies against the SARS-CoV-2. The spike protein is provided. Describe how would you proceed using phage display. What experimental measures would you take to ensure maximal affinity of the antibodies?

	=== 14 juni 2019===		=== 14 juni 2019===
	#Van den Ende: protein-carbohydrate interactions can cause many diseases? What is the nature of these interactions? Give examples of diseases with protein-carbohydrate interactions.		#Van den Ende: protein-carbohydrate interactions can cause many diseases? What is the nature of these interactions? Give examples of diseases with protein-carbohydrate interactions.

Go: /* Examenvragen */

2020-06-19T10:44:08Z

Examenvragen

← Oudere versie		Versie van 19 jun 2020 12:44
Regel 7:		Regel 7:

	== Examenvragen ==		== Examenvragen ==
			=== 17 juni 2020 (Corona exam: 3 hours)===
			#Van den Ende: protein-carbohydrate interactions can cause many diseases? What is the nature of these interactions? Give two examples of diseases with protein-carbohydrate interactions and say how you could stop their progress.
			#Mizuno: Given the equations describing kT, explain three factors affecting FRET efficiency and how (some of them) have to be taken into account when designing molecular sensors. Give two examples about molecular sensors using FRET, one with intermolecular and other with intramolecular FRET.
			#Robben: you need to produce mouse monoclonal antibodies against the SARS-CoV-2. The spike protein is provided. Describe how would you proceed using phage display. What experimental measures would you take to ensure maximal affinity of the antibodies?
	=== 14 juni 2019===		=== 14 juni 2019===
	#Van den Ende: protein-carbohydrate interactions can cause many diseases? What is the nature of these interactions? Give examples of diseases with protein-carbohydrate interactions.		#Van den Ende: protein-carbohydrate interactions can cause many diseases? What is the nature of these interactions? Give examples of diseases with protein-carbohydrate interactions.

Sid: /* 14 juni 2019 */

2019-06-15T09:23:35Z

14 juni 2019

← Oudere versie		Versie van 15 jun 2019 11:23
Regel 10:		Regel 10:
	#Van den Ende: protein-carbohydrate interactions can cause many diseases? What is the nature of these interactions? Give examples of diseases with protein-carbohydrate interactions.		#Van den Ende: protein-carbohydrate interactions can cause many diseases? What is the nature of these interactions? Give examples of diseases with protein-carbohydrate interactions.
	#Mizuno: Describe FRET and fluoresence lifetime, give examples to explain these concepts.		#Mizuno: Describe FRET and fluoresence lifetime, give examples to explain these concepts.
	#Robben: Why doesn't the classical yeast two hybrid system work when one of the proteins is a membrane protein? Which alternative systems do you know would work? Give major advantages or disadvantages.		#Robben: Why doesn't the classical yeast two hybrid system work when one of the proteins is a membrane protein? Which alternative systems do you know would work? Give major advantages or disadvantages.
			(Oral with Wim)

	=== 15 juni 2018===		=== 15 juni 2018===

Sid: /* Examenvragen */

2019-06-15T09:23:13Z

Examenvragen

← Oudere versie		Versie van 15 jun 2019 11:23
Regel 7:		Regel 7:

	== Examenvragen ==		== Examenvragen ==
			=== 14 juni 2019===
			#Van den Ende: protein-carbohydrate interactions can cause many diseases? What is the nature of these interactions? Give examples of diseases with protein-carbohydrate interactions.
			#Mizuno: Describe FRET and fluoresence lifetime, give examples to explain these concepts.
			#Robben: Why doesn't the classical yeast two hybrid system work when one of the proteins is a membrane protein? Which alternative systems do you know would work? Give major advantages or disadvantages.

	=== 15 juni 2018===		=== 15 juni 2018===

Sid: /* 26 juni 2017 */

2019-06-04T19:13:38Z

26 juni 2017

← Oudere versie		Versie van 4 jun 2019 21:13
Regel 20:		Regel 20:
	## Explain the principle of the Scatchard plot using the degree of association (fi)		## Explain the principle of the Scatchard plot using the degree of association (fi)
	##The two given plots depict a wild type (wt) and a mutant (cc) EGFR’s scatchard plot, with the twist that L(bound) is used instead of fi.		##The two given plots depict a wild type (wt) and a mutant (cc) EGFR’s scatchard plot, with the twist that L(bound) is used instead of fi.
	~~[[Bestand:1.png]]~~
	###Explain, how to calculate the association constant! Derive the linear, to get -K		###Explain, how to calculate the association constant! Derive the linear, to get -K
	###Give the association constant for CC! devide y intercept with x intercept, dont forget the unit! (K~0.9/12[1/pM])		###Give the association constant for CC! devide y intercept with x intercept, dont forget the unit! (K~0.9/12[1/pM])