2blo

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[[Image:2blo.gif|left|200px]]<br /><applet load="2blo" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:2blo.gif|left|200px]]
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caption="2blo, resolution 1.33&Aring;" />
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'''ELASTASE BEFORE A HIGH DOSE X-RAY "BURN"'''<br />
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{{Structure
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|PDB= 2blo |SIZE=350|CAPTION= <scene name='initialview01'>2blo</scene>, resolution 1.33&Aring;
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|SITE= <scene name='pdbsite=AC1:So4+Binding+Site+For+Chain+A'>AC1</scene>
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|LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene> and <scene name='pdbligand=SO4:SULFATE ION'>SO4</scene>
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|ACTIVITY= [http://en.wikipedia.org/wiki/Pancreatic_elastase Pancreatic elastase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.36 3.4.21.36]
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|GENE=
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}}
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'''ELASTASE BEFORE A HIGH DOSE X-RAY "BURN"'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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2BLO is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa] with <scene name='pdbligand=CA:'>CA</scene> and <scene name='pdbligand=SO4:'>SO4</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Pancreatic_elastase Pancreatic elastase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.36 3.4.21.36] Known structural/functional Site: <scene name='pdbsite=AC1:So4+Binding+Site+For+Chain+A'>AC1</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BLO OCA].
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2BLO is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BLO OCA].
==Reference==
==Reference==
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Improving radiation-damage substructures for RIP., Nanao MH, Sheldrick GM, Ravelli RB, Acta Crystallogr D Biol Crystallogr. 2005 Sep;61(Pt 9):1227-37. Epub 2005, Aug 16. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16131756 16131756]
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Improving radiation-damage substructures for RIP., Nanao MH, Sheldrick GM, Ravelli RB, Acta Crystallogr D Biol Crystallogr. 2005 Sep;61(Pt 9):1227-37. Epub 2005, Aug 16. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16131756 16131756]
[[Category: Pancreatic elastase]]
[[Category: Pancreatic elastase]]
[[Category: Single protein]]
[[Category: Single protein]]
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[[Category: synchrotron]]
[[Category: synchrotron]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:39:05 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 16:03:34 2008''

Revision as of 14:03, 20 March 2008

Image:2blo.gif


PDB ID 2blo

Drag the structure with the mouse to rotate
, resolution 1.33Å
Sites:
Ligands: and
Activity: Pancreatic elastase, with EC number 3.4.21.36
Coordinates: save as pdb, mmCIF, xml



ELASTASE BEFORE A HIGH DOSE X-RAY "BURN"


Overview

Specific radiation damage can be used to solve macromolecular structures using the radiation-damage-induced phasing (RIP) method. The method has been investigated for six disulfide-containing test structures (elastase, insulin, lysozyme, ribonuclease A, trypsin and thaumatin) using data sets that were collected on a third-generation synchrotron undulator beamline with a highly attenuated beam. Each crystal was exposed to the unattenuated X-ray beam between the collection of a 'before' and an 'after' data set. The X-ray 'burn'-induced intensity differences ranged from 5 to 15%, depending on the protein investigated. X-ray-susceptible substructures were determined using the integrated direct and Patterson methods in SHELXD. The best substructures were found by downscaling the 'after' data set in SHELXC by a scale factor K, with optimal values ranging from 0.96 to 0.99. The initial substructures were improved through iteration with SHELXE by the addition of negatively occupied sites as well as a large number of relatively weak sites. The final substructures ranged from 40 to more than 300 sites, with strongest peaks as high as 57sigma. All structures except one could be solved: it was not possible to find the initial substructure for ribonuclease A, however, SHELXE iteration starting with the known five most susceptible sites gave excellent maps. Downscaling proved to be necessary for the solution of elastase, lysozyme and thaumatin and reduced the number of SHELXE iterations in the other cases. The combination of downscaling and substructure iteration provides important benefits for the phasing of macromolecular structures using radiation damage.

About this Structure

2BLO is a Single protein structure of sequence from Sus scrofa. Full crystallographic information is available from OCA.

Reference

Improving radiation-damage substructures for RIP., Nanao MH, Sheldrick GM, Ravelli RB, Acta Crystallogr D Biol Crystallogr. 2005 Sep;61(Pt 9):1227-37. Epub 2005, Aug 16. PMID:16131756

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