User:SarahGrove/Sandbox 1
From Proteopedia
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==Serum Amyloid P Component== | ==Serum Amyloid P Component== | ||
| - | < | + | <Structure load='1SAC' size='350' frame='true' align='right' caption='1SAC: Serum Amyloid P Component' scene='Insert optional scene name here' /> |
You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue. | You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue. | ||
'''Serum amyloid P component''' (SAP) is a 25kDa pentameric glycoprotein that is present in concentrations between 30-50μg/mL in human serum [7]. As a member of the pentraxin family, SAP shares sequence similarity with C-reactive protein, which is a pentraxin involved in acute phase responses. Proteins belonging to the pentraxin family of plasma proteins have been stably conserved throughout vertebrate evolution [2]. As a result, the structure-function relationship of SAP is very interesting. Thus far, the primary function of SAP has been associated with DNA- and chromatin-binding. It is thought that SAP may scavenge nuclear material released from damaged circulating cells and also function as a calcium-dependent lectin [3]. | '''Serum amyloid P component''' (SAP) is a 25kDa pentameric glycoprotein that is present in concentrations between 30-50μg/mL in human serum [7]. As a member of the pentraxin family, SAP shares sequence similarity with C-reactive protein, which is a pentraxin involved in acute phase responses. Proteins belonging to the pentraxin family of plasma proteins have been stably conserved throughout vertebrate evolution [2]. As a result, the structure-function relationship of SAP is very interesting. Thus far, the primary function of SAP has been associated with DNA- and chromatin-binding. It is thought that SAP may scavenge nuclear material released from damaged circulating cells and also function as a calcium-dependent lectin [3]. | ||
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== Structure == | == Structure == | ||
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</StructureSection> | </StructureSection> | ||
== References == | == References == | ||
| + | 1. “1SAC.” RCSB Protein Data Bank. Web. | ||
| + | <http://www.rcsb.org/pdb/explore/jmol.do?structureId=1SAC&bionumber=1> | ||
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| + | 2. Emsley, J, et al. “Structure of pentameric human serum amyloid P component.” Nature 367 (1994): 338-345. Print. | ||
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| + | 3. “P02743: Human Serum Amyloid P-component” UniProt 16 April 2014. Web. | ||
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| + | 4. Pepys MB, et al. “Targeted pharmacological depletion of serum amyloid P component for treatment of human amyloidosis.” Nature 417 (2002): 254-259. Print. | ||
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| + | 5. Ramamoorthy A, et al. “Amyloid Toxicity of Misfolded Amyloidgenic Peptides.” Univ. of Michigan LSA. Web. | ||
| + | < http://rams.biop.lsa.umich.edu/research/amyloid> | ||
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| + | 6. Tennent GA, Lovat LB, and Pepys MB. “Serum amyloid P component prevents proteolysis of the amyloid fibrils of Alzheimer disease and systemic amyloidosis.” Proc. Natl. Acad. Sci. USA 92 (1995): 4299-4303. Print. | ||
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| + | 7. Yuste J, Botto M, Bottoms SE, and Brown JS. “Serum Amyloid P Aids Complement-Mediated Immunity to Streptococcus pneumoniae.” PLoS Pathogens 3.9 (2007): 1208-1219. Print. | ||
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<references/> | <references/> | ||
Revision as of 17:35, 2 May 2014
Contents |
Serum Amyloid P Component
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You may include any references to papers as in: the use of JSmol in Proteopedia [1] or to the article describing Jmol [2] to the rescue.
Serum amyloid P component (SAP) is a 25kDa pentameric glycoprotein that is present in concentrations between 30-50μg/mL in human serum [7]. As a member of the pentraxin family, SAP shares sequence similarity with C-reactive protein, which is a pentraxin involved in acute phase responses. Proteins belonging to the pentraxin family of plasma proteins have been stably conserved throughout vertebrate evolution [2]. As a result, the structure-function relationship of SAP is very interesting. Thus far, the primary function of SAP has been associated with DNA- and chromatin-binding. It is thought that SAP may scavenge nuclear material released from damaged circulating cells and also function as a calcium-dependent lectin [3].
Structure
According to X-ray analysis, the SAP pentamer consists of five subunits of 204 amino-acid residues, each with a closely similar three-dimensional structure constructed from antiparallel β-strands arranged in two sheets and a long α-helix between strands L and M [2]. Appropriately, the pentraxin family is characterized by distinctive β-jellyroll structures. The five subunits of SAP are arranged in a ring with a hole 20Å in diameter and 35Å deep at the center [2]. While SAP is most commonly characterized as a pentamer, SAP decamers have also been observed. Unlike the pentamer, though, the decamer is less stable and can be readily dissociated by reducing the pH to 5.5 [2].
Several studies have confirmed that SAP has a calcium-binding site, and some have suggested that calcium ligation is likely to be an important local structural determinant. Two large spheres of density which are too heavy to be oxygen atoms and are in positions that imply the presence of calcium ions were identified between 4.0 and 4.3 Å apart in the five subunits [2]. Thus, calcium ions have been recognized as co-factors for SAP. The presence of calcium increases SAP resistance to proteolytic degradation, and all ligand-binding has been proven calcium-dependent at physiological pH and ionic strength.
Potential Functions
Work related to the roles and functions of SAP traces back to the early 1970s. Due to the lack of a natural state of SAP deficiency, it is thought to be an important protein involved in a variety of physiological roles. While reports confirm that SAP is a major calcium-dependent DNA-binding protein in normal serum, there is a lack of evidence explaining the exact functions and reaction mechanisms of SAP. More recent speculations regarding the physiological relevance of SAP have been related to different diseases.
This is a sample scene created with SAT to by Group, and another to make of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.
</StructureSection>
References
1. “1SAC.” RCSB Protein Data Bank. Web. <http://www.rcsb.org/pdb/explore/jmol.do?structureId=1SAC&bionumber=1>
2. Emsley, J, et al. “Structure of pentameric human serum amyloid P component.” Nature 367 (1994): 338-345. Print.
3. “P02743: Human Serum Amyloid P-component” UniProt 16 April 2014. Web.
4. Pepys MB, et al. “Targeted pharmacological depletion of serum amyloid P component for treatment of human amyloidosis.” Nature 417 (2002): 254-259. Print.
5. Ramamoorthy A, et al. “Amyloid Toxicity of Misfolded Amyloidgenic Peptides.” Univ. of Michigan LSA. Web. < http://rams.biop.lsa.umich.edu/research/amyloid>
6. Tennent GA, Lovat LB, and Pepys MB. “Serum amyloid P component prevents proteolysis of the amyloid fibrils of Alzheimer disease and systemic amyloidosis.” Proc. Natl. Acad. Sci. USA 92 (1995): 4299-4303. Print.
7. Yuste J, Botto M, Bottoms SE, and Brown JS. “Serum Amyloid P Aids Complement-Mediated Immunity to Streptococcus pneumoniae.” PLoS Pathogens 3.9 (2007): 1208-1219. Print.
- ↑ Hanson, R. M., Prilusky, J., Renjian, Z., Nakane, T. and Sussman, J. L. (2013), JSmol and the Next-Generation Web-Based Representation of 3D Molecular Structure as Applied to Proteopedia. Isr. J. Chem., 53:207-216. doi:http://dx.doi.org/10.1002/ijch.201300024
- ↑ Herraez A. Biomolecules in the computer: Jmol to the rescue. Biochem Mol Biol Educ. 2006 Jul;34(4):255-61. doi: 10.1002/bmb.2006.494034042644. PMID:21638687 doi:10.1002/bmb.2006.494034042644
