Question

How does someone determine if the ligand binding pocket is shallow or deep? Specifically between 4XAD...

How does someone determine if the ligand binding pocket is shallow or deep? Specifically between 4XAD and the ligand.

Homework Answers

Answer #1

Ligand binding ability tells about the efficiency of producing biological response upon binding with the target receptor.

Here 4XAD is an Egg white Lysozyme. 4XAD acts a catalyst in the hydrolysis of two sugars which make up the bacteria wall. These two sugars are β-(1,4) glycosidic bond between N- acetylglucosamine (NAG) and N-acetylmuramic acid (NAM).

The ligand which is used to bind this enzyme is a saccharide compund consist of two rings combined by oxygen atom. The ligand name is 2-(acetylamino)-2-deoxy-4-O-beta- D-galactofuranosyl-alpha-D-glucopyranose. Therefore it is logical to say that lysozyme would bind it given the enzyme’s relationship to the glycosidic bond between NAG and NAM.

The ligand binding pocket will be SHALLOW as the ligand is exposed open to the solution and not completely enclosed by the protein.

Know the answer?
Your Answer:

Post as a guest

Your Name:

What's your source?

Earn Coins

Coins can be redeemed for fabulous gifts.

Not the answer you're looking for?
Ask your own homework help question
Similar Questions
explain the relationship between a deep copy and its pointer. explain the relationship between a shallow...
explain the relationship between a deep copy and its pointer. explain the relationship between a shallow copy and its pointer. how many bytes are incremented if a pointer such as *p is incremented using pointer arithmetic such as (depending upon which primitive type it point to; int, double, char etc). write a copy constructor to copy a class object containing a dynamic array. use a member by member copy techniques shown in the textbook. using correct c++ syntax, write the...
In C++ please. 2.Explain the differences between shallow copy and deep copy. Explain the kind of...
In C++ please. 2.Explain the differences between shallow copy and deep copy. Explain the kind of classes where the two copies differ. State the language constructs that eliminate problems that this difference creates.
A scientist is trying to explain the free energy of binding (ΔGbind) between a ligand and...
A scientist is trying to explain the free energy of binding (ΔGbind) between a ligand and protein receptor. Experimental measurements indicate a binding enthalpy of ΔHbind = -59.7 kcal/mol. After analyzing the crystal structure of the receptor-ligand complex, the scientist identifies three interface charge-charge contacts and reasons that all other energetic contributions can be ignored. The three charge-charge contacts have the following properties, Contact 1 involves a pair of positively (+1.0) and negatively (-1.0) charged atoms separated by 4.0 Å...
Consider the following ligand binding equilibrium at 25 °C:                                 &n
Consider the following ligand binding equilibrium at 25 °C:                                                   P+LPL            ∆G° = –10 kJ/mol a) What is the Ka for the binding of P to L? Use the relationship between free energy and equilibrium constant: ∆G°=-RT ln Keq. The answer is 56 /M. b) What is the Kd for the dissociation of PL to P and L? Kd=1/Ka, or ∆G° = +10 kJ/mol c) The rate constant for binding of P to L is 106 M-1s-1.  What is the rate constant for...
Identify the phrases that correctly apply to how specificity determines receptor-ligand interactions. Select all that apply....
Identify the phrases that correctly apply to how specificity determines receptor-ligand interactions. Select all that apply. * allows receptors to recognize only a signal that they are made for * allows receptors to form non-covalent bonds with messenger molecules * relies on molecular fit between two molecules * allows receptors to distinguish between very similar molecules * in simple words it is just a strength of ligand binding is a measure of strength of binding determines which type of ligands...
Can someone explain how the mRNA relates in this sentence? "The RNA-binding protein Lin-28 has recently...
Can someone explain how the mRNA relates in this sentence? "The RNA-binding protein Lin-28 has recently been shown to enhance Insulin receptor (InR) mRNA levels in the ISC [20]." What do they mean by mRNA levels of the Insulin receptor? What does that mean, and what is the relation between the mRNA and the receptor for insulin?
How does penicillin specifically mess with bacteria?
How does penicillin specifically mess with bacteria?
How does EcoRV differentiate between cognate and non-specific DNA? a. binding energy for cognate DNA is...
How does EcoRV differentiate between cognate and non-specific DNA? a. binding energy for cognate DNA is higher than for non-specific DNA b. magnesium is only bound in when EcoRv binds to non-specific DNA c. DNA is distorted when EcoRV binds to the cognate sequence. d. all of the above e. none of the above
Explain how different factors influence the hemoglobin binding curve, and how they affect the transition between...
Explain how different factors influence the hemoglobin binding curve, and how they affect the transition between the T and the R state. Also explain the physiological consequences of shifting the hemoglobin binding curve to higher affinity or lower affinity.
What is the transition state stabilization or binding energy? Why does an enzyme destablize the interaction...
What is the transition state stabilization or binding energy? Why does an enzyme destablize the interaction between the active site and the substrate? How does it do this?
ADVERTISEMENT
Need Online Homework Help?

Get Answers For Free
Most questions answered within 1 hours.

Ask a Question
ADVERTISEMENT