Sandbox TMV - Revision history

Madhuri Patel at 15:32, 21 November 2013

2013-11-21T15:32:13Z

← Older revision		Revision as of 15:32, 21 November 2013
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	<StructureSection load="2tmv" size="400" color="" frame="true" spin="on" Scene='Tobacco_Mosaic_Virus/2tmv_lockwasher_ring/1' align="right" caption="TMV coat protein [[2tmv]]" >		<StructureSection load="2tmv" size="400" color="" frame="true" spin="on" Scene='Tobacco_Mosaic_Virus/2tmv_lockwasher_ring/1' align="right" caption="TMV coat protein [[2tmv]]" >
	==Tobacco Mosaic Virus==		==Tobacco Mosaic Virus==
	Tobacco Mosaic Virus (TMV)is a positive-sense single stranded RNA virus that infects plants, especially tobacco and other members of the family Solanaceae. The infection causes characteristic patterns, such as "mosaic"-like mottling and discoloration on the leaves (hence the name). TMV was the first virus to ever be discovered. It is composed of 2130 identical coat protein subunits following the		Tobacco Mosaic Virus (TMV) is a positive-sense single stranded RNA virus that infects plants, especially tobacco and other members of the family Solanaceae. The infection causes characteristic patterns, such as "mosaic"-like mottling and discoloration on the leaves (hence the name). TMV was the first virus to ever be discovered. It is composed of 2130 identical coat protein subunits following the
	right-handed helix of an accompanying RNA strand to produce a 300 nm hollow cylinder with an		right-handed helix of an accompanying RNA strand to produce a 300 nm hollow cylinder with an
	outer diameter of 18 nm and a 4 nm wide central channel. This here is a protein-nucleic acid interactions in the virus.		outer diameter of 18 nm and a 4 nm wide central channel. This here is a protein-nucleic acid interactions in the virus.
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	==Carboxylates==		==Carboxylates==
	Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.		Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.
	There are phosphate carboxylates in the structure of the virus, the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> are presented in the color teal in the molecule. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since there will not be anything to bind to calcium. Here is a display of pbd 2TMV showing the virus with <scene name='56/561621/Calcium/3'>calcium</scene> binding to carboxylates in order to stabilize the capsid.		There are phosphate carboxylates in the structure of the virus, the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> are presented in the color teal in the molecule. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since there will not be anything to bind to calcium. Here is a display of pbd 2TMV showing the virus with <scene name='56/561621/Calcium/3'>calcium</scene> in pink binding to carboxylates in order to stabilize the capsid.

	This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the		This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the
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	==Repeating Subunits==		==Repeating Subunits==
	Th repeating basic unit consists of 49 subunits which cover a section of 69 Å of height in three turns of the helix (= a rise of 23 Å per turn). A single strand of RNA is placed between the protein subunits at a distance of 40 Å from the outer diameter. The figure depicts one basic unit. Protein and RNA are shown in spacefill mode, RNA in white, the protein changing from red to blue along the helix. The ~~uppermoust~~ subunit is marked light brown. Each protein subunit covers three nucleotides of the RNA.		Th repeating basic unit consists of 49 subunits which cover a section of 69 Å of height in three turns of the helix (= a rise of 23 Å per turn). A single strand of RNA is placed between the protein subunits at a distance of 40 Å from the outer diameter. The figure depicts one basic unit. Protein and RNA are shown in spacefill mode, RNA in white, the protein changing from red to blue along the helix. The uppermost subunit is marked light brown. Each protein subunit covers three nucleotides of the RNA.
	[[Image:TMV-colored.gif\|left\|200px\|thumb\|Repeating Subunits of Helical Tobacco Mosaic Virus ]]		[[Image:TMV-colored.gif\|left\|200px\|thumb\|Repeating Subunits of Helical Tobacco Mosaic Virus ]]

Madhuri Patel at 14:38, 21 November 2013

2013-11-21T14:38:00Z

← Older revision		Revision as of 14:38, 21 November 2013
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	==Sign and Symptoms==		==Sign and Symptoms==
	Symptoms that occur by Tobacco mosaic virus dependent on the ~~plants~~'s host. The symptoms include mosaic, mottling, necrosis, stunting, leaf curling, and yellowing of the ~~tissiues~~ of the plant. All the symptoms depend on the age of the plant, the environment's condition, the virus strain, and the genetic background of the host plant. Strains of TMV also infect tomato, ~~sometime~~ causing poor yield or distorted fruits, delayed fruit ripening, and nonuniform fruit color.		Symptoms that occur by Tobacco mosaic virus dependent on the plant's host. The symptoms include mosaic, mottling, necrosis, stunting, leaf curling, and yellowing of the tissues of the plant. All the symptoms depend on the age of the plant, the environment's condition, the virus strain, and the genetic background of the host plant. Strains of TMV also infect tomato, sometimes causing poor yield or distorted fruits, delayed fruit ripening, and nonuniform fruit color.

	==Treatment==		==Treatment==

Madhuri Patel at 21:48, 18 November 2013

2013-11-18T21:48:55Z

← Older revision		Revision as of 21:48, 18 November 2013
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	==Carboxylates==		==Carboxylates==
	Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.		Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.
	There are phosphate carboxylates in the structure of the virus, the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> are presented in the color teal in the molecule. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since it will not be ~~able~~ to bind to calcium. Here is a display of pbd 2TMV showing the virus with <scene name='56/561621/Calcium/3'>calcium</scene> binding to carboxylates in order to stabilize the capsid.		There are phosphate carboxylates in the structure of the virus, the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> are presented in the color teal in the molecule. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since there will not be anything to bind to calcium. Here is a display of pbd 2TMV showing the virus with <scene name='56/561621/Calcium/3'>calcium</scene> binding to carboxylates in order to stabilize the capsid.

	This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the		This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the

Madhuri Patel at 21:46, 18 November 2013

2013-11-18T21:46:28Z

← Older revision		Revision as of 21:46, 18 November 2013
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	outer diameter of 18 nm and a 4 nm wide central channel. This here is a protein-nucleic acid interactions in the virus.		outer diameter of 18 nm and a 4 nm wide central channel. This here is a protein-nucleic acid interactions in the virus.

	==~~Caspar~~ Carboxylates==		==Carboxylates==
	Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.		Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.
	There are phosphate carboxylates in the structure of the virus, the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> are presented in the color teal in the molecule. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since it will not be able to bind to calcium. Here is a display of pbd 2TMV showing the virus with <scene name='56/561621/Calcium/3'>calcium</scene> binding to carboxylates in order to stabilize the capsid.		There are phosphate carboxylates in the structure of the virus, the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> are presented in the color teal in the molecule. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since it will not be able to bind to calcium. Here is a display of pbd 2TMV showing the virus with <scene name='56/561621/Calcium/3'>calcium</scene> binding to carboxylates in order to stabilize the capsid.

Madhuri Patel: /* Tobacco Mosaic Virus */

2013-11-14T16:36:53Z

Tobacco Mosaic Virus

← Older revision		Revision as of 16:36, 14 November 2013
Line 8:		Line 8:
	==Caspar Carboxylates==		==Caspar Carboxylates==
	Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.		Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.
	There are phosphate carboxylates in the structure of the virus, the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> are presented in the color teal in the molecule. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since it will not be able to bind to calcium.Here is a display of pbd 2TMV showing the <scene name='56/561621/Calcium/3'>calcium</scene> binding to carboxylates in order to stabilize the capsid.		There are phosphate carboxylates in the structure of the virus, the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> are presented in the color teal in the molecule. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since it will not be able to bind to calcium. Here is a display of pbd 2TMV showing the virus with <scene name='56/561621/Calcium/3'>calcium</scene> binding to carboxylates in order to stabilize the capsid.

	This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the		This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the

Madhuri Patel at 16:33, 14 November 2013

2013-11-14T16:33:48Z

← Older revision		Revision as of 16:33, 14 November 2013
Line 8:		Line 8:
	==Caspar Carboxylates==		==Caspar Carboxylates==
	Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.		Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.
	There are phosphate carboxylates in the structure of the virus, ~~here is what~~ the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> ~~look like~~. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since it will not be able to bind to calcium.Here is a display of <scene name='56/561621/Calcium/3'>calcium</scene> binding to ~~the~~ carboxylates to ~~stablize~~ the capsid.		There are phosphate carboxylates in the structure of the virus, the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> are presented in the color teal in the molecule. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since it will not be able to bind to calcium.Here is a display of pbd 2TMV showing the <scene name='56/561621/Calcium/3'>calcium</scene> binding to carboxylates in order to stabilize the capsid.

	This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the		This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the

Madhuri Patel at 17:21, 12 November 2013

2013-11-12T17:21:07Z

← Older revision		Revision as of 17:21, 12 November 2013
Line 8:		Line 8:
	==Caspar Carboxylates==		==Caspar Carboxylates==
	Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.		Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.
	There are phosphate carboxylates in the structure of the virus, here is what the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> look like. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since it will not be able to bind to calcium.		There are phosphate carboxylates in the structure of the virus, here is what the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> look like. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since it will not be able to bind to calcium.Here is a display of <scene name='56/561621/Calcium/3'>calcium</scene> binding to the carboxylates to stablize the capsid.

	This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the		This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the

Madhuri Patel at 16:47, 12 November 2013

2013-11-12T16:47:48Z

← Older revision		Revision as of 16:47, 12 November 2013
Line 1:		Line 1:
	== Tobacco Mosaic Virus ==		== Tobacco Mosaic Virus ==
	<StructureSection load="2tmv" size="400" color="" frame="true" spin="on" Scene='Tobacco_Mosaic_Virus/2tmv_lockwasher_ring/1' align="right" caption="TMV coat protein [[2tmv]]" >		<StructureSection load="2tmv" size="400" color="" frame="true" spin="on" Scene='Tobacco_Mosaic_Virus/2tmv_lockwasher_ring/1' align="right" caption="TMV coat protein [[2tmv]]" >

	==Tobacco Mosaic Virus==		==Tobacco Mosaic Virus==
	Tobacco Mosaic Virus (TMV)is a positive-sense single stranded RNA virus that infects plants, especially tobacco and other members of the family Solanaceae. The infection causes characteristic patterns, such as "mosaic"-like mottling and discoloration on the leaves (hence the name). TMV was the first virus to ever be discovered. It is composed of 2130 identical coat protein subunits following the		Tobacco Mosaic Virus (TMV)is a positive-sense single stranded RNA virus that infects plants, especially tobacco and other members of the family Solanaceae. The infection causes characteristic patterns, such as "mosaic"-like mottling and discoloration on the leaves (hence the name). TMV was the first virus to ever be discovered. It is composed of 2130 identical coat protein subunits following the

Madhuri Patel: /* Tobacco Mosaic Virus */

2013-11-12T16:34:44Z

Tobacco Mosaic Virus

← Older revision		Revision as of 16:34, 12 November 2013
Line 9:		Line 9:
	==Caspar Carboxylates==		==Caspar Carboxylates==
	Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.		Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.
	There are phosphate carboxylates in the structure of the virus, here is what the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> look like. They are calcium-binding sites along with the carboxylates.		There are phosphate carboxylates in the structure of the virus, here is what the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> look like. They are calcium-binding sites along with the carboxylates. When phosphate-carboxylates bind to calcium it makes the capsid more stable. When the phosphate- carboxylates or the carboxylates are not present then capsid will be unstable, since it will not be able to bind to calcium.

	This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the		This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the

Madhuri Patel: /* Tobacco Mosaic Virus */

2013-11-11T19:07:10Z

Tobacco Mosaic Virus

← Older revision		Revision as of 19:07, 11 November 2013
Line 9:		Line 9:
	==Caspar Carboxylates==		==Caspar Carboxylates==
	Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.		Two clusters of acidic amino acids are thought to be important for the disassembly of the <scene name='2tmv/2tmv_lockwasher_ring/1'>helical structure of TMV</scene>. When the virus enters cells, the higher pH and lower calcium levels increase the repulsion of neighboring carboxylates, destabilizing the capsid. This concept was originally proposed by Caspar and subsequently examined by site-directed mutagenesis <ref>Caspar carboxylates: the structural basis of tobamovirus assembly. Wang H, Planchart A, Stubbs G. Biophys. J. 1998, 74, 633-638.</ref>. Several carboxylates were identified including <scene name='2tmv/2tmv_carbox1/2'>Glu50 and ASP77</scene>, which contact each other in the helical stack by <scene name='56/561621/Hydrogen_bond/1'> hydrogen bond</scene> (look closely at the <scene name='2tmv/2tmv_carbox1_closeup/1'>two subunits that overlap</scene> in this lockwasher complex), and a cluster of four acidic amino acids, <scene name='2tmv/2tmv_carbox2/2'>GLU95, GLU97, GLU106 and GLU109</scene>, near the center of the ring.
	There are phosphate carboxylates in the structure of the virus, here is what the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> look like. ~~The~~ are calcium-binding sites along with the carboxylates.		There are phosphate carboxylates in the structure of the virus, here is what the <scene name='56/561621/Phosphate_carboxylates/1'>phosphate-carboxylates</scene> look like. They are calcium-binding sites along with the carboxylates.

	This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the		This section complements the article on [http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb109_1.html Tobacco Mosaic Virus] in the