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This Sandbox is Reserved from February 28 through September 1, 2022 for use in the course CH462 Biochemistry II taught by R. Jeremy Johnson at the Butler University, Indianapolis, USA. This reservation includes Sandbox Reserved 1700 through Sandbox Reserved 1729.

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Human Neurofibromin - The Tumor Suppressor Gene

1 Introduction
2 Structure
- 2.1 Closed Conformation
- 2.2 Open Conformation
3 Function
4 Disease
5 Student Contributors

Introduction

Surface Rendering of Neurofibromin in its Open and Closed Conformation

Neurofibromin is a protein that is coded for by the NF1 Gene which is located on chromosome 17. It functions as a tumor suppressor gene through its association with the protein Ras. The molecular structure of Neurofibromin has been determined by Cryo-Electron Microscopy. The structure of neurofibromin isoform 2 by cryo-electron microscopy revealed different functional states for the Neurofibromin protein.^[1] Mutations in Neurofibromin is associated with diseases such as Plexiform Neurofibromas.

Structure

Neurofibromin is a made up of two identical chains. There are two conformations that classify neurofibromin known as its open and closed conformations. These conformations allow neurofibromin to associate with the protein Ras and perform its function of Ras regulation. The transformation between the overall closed conformation and open conformation of neurofibromin signifies a transition between an active neurofibromin protein and an inactive neurofibromin protein. There are two important domains involved in the transition between the open and closed conformations, the domain and the domain. Although neurofibromin is a homodimer with two identical protomers, only one protomer needs to have its GRD and Sec14-PH domains rotated in the open conformation in order for it to be able to perform its function.

Closed Conformation

The first conformation of Neurofibromin is known as the , which is representative of an inactive Neurofibromin protein. In the closed conformation, both sets of the GRD and Sec14-PH domains are rotated in a way that they are inaccessible and inactive due to a consisting of residues cysteine 1032, histidine 1558, and histidine 1576 that form a transition metal-binding site with zinc. The close proximity of the C1032, H1558, and H1576 residues that form the triade keep the GRD domain packed tightly on top of the Neurofibromin core. This tight compaction leads to steric inhibition when Neurofibromin tries to perform its function and associate with Ras. The association between Ras and Neurofibromin is supposed to occur via an located at Residue 1276. However, the steric hindrance from the Neurofibromin core in the closed conformation inhibits this association. Therefore, when Neurofibromin is in the closed conformation, there is no association with Ras and cell growth and proliferation is able to occur.

Open Conformation

The other conformation that characterizes Neurofibromin is the . In the open conformation of Neurofibromin, the protein is considered active and is participating in its function of Ras regulation. This occurs because the transition metal-binding site with zinc no longer is able to form due to an increase in distance between the C1032, H1558 and H1576 residues that form the . One protomer in Neurofibromin has its GRD and Sec14-PH domains oriented in way that is almost reversed in position compared to the closed conformation. Due to this rotation, C1032 is now located too far away, approximately 30 Angstroms, from H1558 and H1576 which results in the loss of the metal-binding site. The lack of the transition metal-binding site allows the GRD to orient itself in such a way that it can associate with . The reason that Neurofibromin is only able to associate with Ras in the open conformation is due to one critical residue, the located at position 1276 in Neurofibromin. When Neurofibromin is in the open conformation, R1276 is able to because there is no steric hindrance from the Neurofibromin core.

Rotation of the GRD and Sec14-PH domains from the closed conformation of neurofibromin to the open conformation of neurofibromin to allow Ras binding. The GRD rotates -130° and the Sec14-PH domain rotates -90°

Function

Neurofibromin functions as a tumor suppressor protein.^[2] Its job is to prevent cell growth by turning off another protein known as Ras which in its active state, stimulates cell growth and division. Ras is a GTPase membrane protein that can only interact with Neurofibromin, a cytoplasmic protein, in the open conformation. As Neurofibromin is a cytoplasmic protein, it is brought to the membrane to associate with Ras via another protein known as SPRED1. Neurofibromin can interact with SPRED1 in both the open and closed conformations however, it can only associate with Ras when it is in its open conformation. The interaction between Neurofibromin and Ras occurs via an arginine finger (R1276) present in the GRD of Neurofibromin which is critical for Ras binding. R1276 is only accessible for binding when the GRD and Sec14-PH domains of Neurofibromin are rotated into the open conformation and there is no steric hindrance from the surrounding dimer chains. When R1276 is able to associate with Ras, Neurofibromin downregulates the Ras signaling pathway by hydrolyzing the GTP associated with Ras to GDP, effectively making it inactive and inhibiting cell growth and division.

Mechanism of Ras Regulation by Neurofibromin

Disease

Currently, there are over 1485 mutations of Neurofibromin that have been identified. Mutations in Neurofibromin can lead to life-threatening illnesses or conditions such as Neurofibromatosis Type I due to the inability of Neurofibromin to interact with Ras.^[3] The role of Neurofibromin is to inhibit cellular proliferation via its guanine triphosphatase-activating protein (GAP) activity, therefore when there are mutations to the NF1 gene that prevents the interaction of Neufibromin with Ras, there is nothing stopping Ras from promoting cell growth. Uncontrolled cell growth can lead to tumors and a higher risk of cancer. Neurofibromatosis Type 1, the most well-known disease resulting from mutations in Neurofibromin, is characterized by cognitive impairment, soft, non-cancerous tumors on or under the skin known as neurofibromas, birthmarks, clusters of freckles in unusual places, and problems with the bones, eyes and nervous system.

Student Contributors

Hannah Luchinski
Sophie Mullinix

References

↑ Naschberger A, Baradaran R, Rupp B, Carroni M. The structure of neurofibromin isoform 2 reveals different functional states. Nature. 2021 Nov;599(7884):315-319. doi: 10.1038/s41586-021-04024-x. Epub 2021, Oct 27. PMID:34707296 doi:http://dx.doi.org/10.1038/s41586-021-04024-x
↑ Trovo-Marqui AB, Tajara EH. Neurofibromin: a general outlook. Clin Genet. 2006 Jul;70(1):1-13. doi: 10.1111/j.1399-0004.2006.00639.x. PMID:16813595 doi:http://dx.doi.org/10.1111/j.1399-0004.2006.00639.x
↑ Lupton CJ, Bayly-Jones C, D'Andrea L, Huang C, Schittenhelm RB, Venugopal H, Whisstock JC, Halls ML, Ellisdon AM. The cryo-EM structure of the human neurofibromin dimer reveals the molecular basis for neurofibromatosis type 1. Nat Struct Mol Biol. 2021 Dec;28(12):982-988. doi: 10.1038/s41594-021-00687-2., Epub 2021 Dec 9. PMID:34887559 doi:http://dx.doi.org/10.1038/s41594-021-00687-2

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@@ Line 16: / Line 16: @@
 === Open Conformation ===
 The other conformation that characterizes Neurofibromin is the <scene name='90/904315/Open_conformation/2'>Open Conformation</scene>. In the open conformation of Neurofibromin, the protein is considered active and is participating in its function of Ras regulation. This occurs because the transition metal-binding site with zinc no longer is able to form due to an increase in distance between the C1032, H1558 and H1576 residues that form the <scene name='90/904315/Open_conformation_triade/3'>Open Triade</scene>. One protomer in Neurofibromin has its GRD and Sec14-PH domains oriented in way that is almost reversed in position compared to the closed conformation. Due to this rotation, C1032 is now located too far away, approximately 30 Angstroms, from H1558 and H1576 which results in the loss of the metal-binding site. The lack of the transition metal-binding site allows the GRD to orient itself in such a way that it can associate with <scene name='90/904315/Ras_open_conformation/1'>Ras in the Open Conformation</scene>. The reason that Neurofibromin is only able to associate with Ras in the open conformation is due to one critical residue, the <scene name='90/904315/Open_conformation_arginine_fin/1'>Arginine Finger</scene> located at position 1276 in Neurofibromin. When Neurofibromin is in the open conformation, R1276 is able to <scene name='90/904315/Ras_open_conformation_with_arg/1'>bind to Ras</scene> because there is no steric hindrance from the Neurofibromin core.
-[[Image:GRDandSec14PHRotation.jpg|400 px|right|thumb|Rotation of the GRD and Sec14-PH domains from the closed conformation of neurofibromin to the open conformation of neurofibromin to allow Ras binding. The GRD rotates -130° and the Sec14-PH domain rotates -90°]]
+[[Image:GRDandSec14PHRotation.jpg|400 px|left|thumb|Rotation of the GRD and Sec14-PH domains from the closed conformation of neurofibromin to the open conformation of neurofibromin to allow Ras binding. The GRD rotates -130° and the Sec14-PH domain rotates -90°]]
 == Function ==
-Neurofibromin functions as a tumor suppressor protein.<ref name="Trovó-Marqui">PMID:16813595</ref> Its job is to prevent cell growth by turning off another protein known as [https://en.wikipedia.org/wiki/Ras_GTPase Ras] which in its active state, stimulates cell growth and division. Ras is a GTPase membrane protein that can only interact with Neurofibromin, a cytoplasmic protein, in the open conformation. As Neurofibromin is a cytoplasmic protein, it is brought to the membrane to associate with Ras via another protein known as SPRED1. Neurofibromin can interact with SPRED1 in both the open and closed conformations however, it can only associate with Ras when it is in its open conformation. The interaction between Neurofibromin and Ras occurs via an arginine finger (R1276) present in the GRD of Neurofibromin which is critical for Ras binding. R1276 is only accessible for binding when the GRD and Sec14-PH domains of Neurofibromin are rotated into the open conformation and there is no steric hindrance from the surrounding dimer chains. When R1276 is able to associate with Ras, Neurofibromin downregulates the Ras signaling pathway by hydrolyzing the GTP associated with Ras to GDP, effectively making it inactive and inhibiting cell growth and division.[[Image:mechanismofRas.png|400 px|left|thumb|Mechanism of Ras Regulation by Neurofibromin]]
+Neurofibromin functions as a tumor suppressor protein.<ref name="Trovó-Marqui">PMID:16813595</ref> Its job is to prevent cell growth by turning off another protein known as [https://en.wikipedia.org/wiki/Ras_GTPase Ras] which in its active state, stimulates cell growth and division. Ras is a GTPase membrane protein that can only interact with Neurofibromin, a cytoplasmic protein, in the open conformation. As Neurofibromin is a cytoplasmic protein, it is brought to the membrane to associate with Ras via another protein known as SPRED1. Neurofibromin can interact with SPRED1 in both the open and closed conformations however, it can only associate with Ras when it is in its open conformation. The interaction between Neurofibromin and Ras occurs via an arginine finger (R1276) present in the GRD of Neurofibromin which is critical for Ras binding. R1276 is only accessible for binding when the GRD and Sec14-PH domains of Neurofibromin are rotated into the open conformation and there is no steric hindrance from the surrounding dimer chains. When R1276 is able to associate with Ras, Neurofibromin downregulates the Ras signaling pathway by hydrolyzing the GTP associated with Ras to GDP, effectively making it inactive and inhibiting cell growth and division.[[Image:mechanismofRas.png|400 px|right|thumb|Mechanism of Ras Regulation by Neurofibromin]]
 == Disease ==

Sandbox Reserved 1710

From Proteopedia

Revision as of 19:51, 28 March 2022

Human Neurofibromin - The Tumor Suppressor Gene

Contents

Introduction

Structure

Closed Conformation

Open Conformation

Function

Disease

Student Contributors

References

Views

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