Sandbox 72: Difference between revisions

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{{Template:McQuaid Sandbox Reservation}}
{{Template:McQuaid Sandbox Reservation}}
==A FIBRIN b==
{{Seed}}
When you cut yourself, you bleed, but the bleeding rapidly stops. Blood has a built-in emergency repair system that quickly blocks any damage to the circulatory system, creating a temporary patch that allows time for more permanent repairs. Three basic mechanisms are at work. First, platelets (small fragments of blood cells that circulate in the blood) clump at the site of the wound, forming a weak plug. Second, neighboring blood vessels constrict, reducing the amount of blood flowing into the area. Finally, the protein fibrin assembles into a tough network that clots the blood and forms an insoluble blockage. Together, these methods stop the loss of blood and create a sturdy scab to protect the area as you heal.  
[[Image:1m1j.png|left|100px]]




Replace the PDB id (use lowercase!) after the STRUCTURE_ and after PDB= to load
  {{STRUCTURE_1m1j |  PDB=1m1j|  SCENE=  }}
and display another structure.


{{STRUCTURE_1m1j | PDB=1m1j| SCENE= }}
== '''FIBRIN''' ==
This protein works in the blood to quickly blocks any damage to the circulatory system,
creating a temporary patch that allows time for more permanent repairs. It is a strong protein that is inactive until activated when a cut or lacerition to the skin is present. Fibrin is involved in the following biological processes of humans: [http://en.wikipedia.org/wiki/Signal_transduction Signal transduction], [http://en.wikipedia.org/wiki/Blood_coagulation Blood coagulation], [http://en.wikipedia.org/wiki/Platelet-activating_factor Platelet activation], and [http://en.wikipedia.org/wiki/Protein#Synthesis Protein polymerization ].Fibrin is made from fibrinogen, a soluble plasma glycoprotein that is made by the liver. Processes in the coagulation cascade activate the protein : zymogen prothrombin to the serine protease thrombin, which is responsible for converting fibrinogen into fibrin. Fibrin is then cross linked by factor XIII to form a clot.
                                                                     
   
== '''FUNCTION & STRUCTURE''' ==
Fibrin in the blood works along with two other molecules. These molecules are platelets (small fragments of blood cells that circulate in the blood), and neighboring blood vessels which constrict when needed. These methods work together along with Fibrin to create scabs which stop the flow of blood. The structure of Fibrin is mainly consists of single alpha helices shown in pink and beta sheets shown in yellow. The <scene name='Sandbox_72/Hydrogen_side_chain_bonds/1'>Back Bone</scene> of The Fibrin Protein allows it to be flexible and clog lacerations to the skin. Apart of Fibrin, there is a vertebrate hexamer containing two sets of three different chains (α, β, and γ), linked to each other by <scene name='Sandbox_72/Polar_site/1'>disulfide bonds</scene> bonds.
Fibrin is more of a crystal structure with two double-d fragment from human fibrin with two bound ligands. The chemical structures of the ligands are Ca+2 ion, alpha-D-mannose (C6H1206), and D-glcosamine (C8H15NO6). This is the <scene name='Sandbox_72/Practice/1'>beta sheets</scene> of fibrin.
 
== '''Additional Information''' ==
 
 
 
 
----

Latest revision as of 16:50, 7 May 2009

Please do NOT make changes to this Sandbox until after April 30, 2009. Sandboxes 60-80 are reserved until then for use by students of East High, Buffalo NY.


PDB ID 1m1j

Drag the structure with the mouse to rotate
1m1j, resolution 2.70Å ()
Ligands: , ,
Related: 1ei3, 1fzc
Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml



FIBRINFIBRIN

This protein works in the blood to quickly blocks any damage to the circulatory system, creating a temporary patch that allows time for more permanent repairs. It is a strong protein that is inactive until activated when a cut or lacerition to the skin is present. Fibrin is involved in the following biological processes of humans: Signal transduction, Blood coagulation, Platelet activation, and Protein polymerization .Fibrin is made from fibrinogen, a soluble plasma glycoprotein that is made by the liver. Processes in the coagulation cascade activate the protein : zymogen prothrombin to the serine protease thrombin, which is responsible for converting fibrinogen into fibrin. Fibrin is then cross linked by factor XIII to form a clot.


FUNCTION & STRUCTUREFUNCTION & STRUCTURE

Fibrin in the blood works along with two other molecules. These molecules are platelets (small fragments of blood cells that circulate in the blood), and neighboring blood vessels which constrict when needed. These methods work together along with Fibrin to create scabs which stop the flow of blood. The structure of Fibrin is mainly consists of single alpha helices shown in pink and beta sheets shown in yellow. The of The Fibrin Protein allows it to be flexible and clog lacerations to the skin. Apart of Fibrin, there is a vertebrate hexamer containing two sets of three different chains (α, β, and γ), linked to each other by bonds. Fibrin is more of a crystal structure with two double-d fragment from human fibrin with two bound ligands. The chemical structures of the ligands are Ca+2 ion, alpha-D-mannose (C6H1206), and D-glcosamine (C8H15NO6). This is the of fibrin.

Additional InformationAdditional Information

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Pat McQuaid, Student
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