1rky

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[[Image:1rky.gif|left|200px]]<br /><applet load="1rky" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:1rky.gif|left|200px]]
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caption="1rky, resolution 1.68&Aring;" />
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'''PPLO + Xe'''<br />
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{{Structure
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|PDB= 1rky |SIZE=350|CAPTION= <scene name='initialview01'>1rky</scene>, resolution 1.68&Aring;
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|SITE=
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|LIGAND= <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene> and <scene name='pdbligand=XE:XENON'>XE</scene>
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|ACTIVITY= [http://en.wikipedia.org/wiki/Protein-lysine_6-oxidase Protein-lysine 6-oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.3.13 1.4.3.13]
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|GENE= ATCC 28, 485 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4922 Pichia pastoris])
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}}
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'''PPLO + Xe'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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1RKY is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Pichia_pastoris Pichia pastoris] with <scene name='pdbligand=NAG:'>NAG</scene>, <scene name='pdbligand=CU:'>CU</scene>, <scene name='pdbligand=CA:'>CA</scene>, <scene name='pdbligand=MG:'>MG</scene>, <scene name='pdbligand=CL:'>CL</scene>, <scene name='pdbligand=IMD:'>IMD</scene> and <scene name='pdbligand=XE:'>XE</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Protein-lysine_6-oxidase Protein-lysine 6-oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.3.13 1.4.3.13] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RKY OCA].
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1RKY is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pichia_pastoris Pichia pastoris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RKY OCA].
==Reference==
==Reference==
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Using xenon as a probe for dioxygen-binding sites in copper amine oxidases., Duff AP, Trambaiolo DM, Cohen AE, Ellis PJ, Juda GA, Shepard EM, Langley DB, Dooley DM, Freeman HC, Guss JM, J Mol Biol. 2004 Nov 26;344(3):599-607. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15533431 15533431]
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Using xenon as a probe for dioxygen-binding sites in copper amine oxidases., Duff AP, Trambaiolo DM, Cohen AE, Ellis PJ, Juda GA, Shepard EM, Langley DB, Dooley DM, Freeman HC, Guss JM, J Mol Biol. 2004 Nov 26;344(3):599-607. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15533431 15533431]
[[Category: Pichia pastoris]]
[[Category: Pichia pastoris]]
[[Category: Protein-lysine 6-oxidase]]
[[Category: Protein-lysine 6-oxidase]]
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[[Category: xenon]]
[[Category: xenon]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:52:00 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 13:53:03 2008''

Revision as of 11:53, 20 March 2008

Image:1rky.gif


PDB ID 1rky

Drag the structure with the mouse to rotate
, resolution 1.68Å
Ligands: , , , , , and
Gene: ATCC 28, 485 (Pichia pastoris)
Activity: Protein-lysine 6-oxidase, with EC number 1.4.3.13
Coordinates: save as pdb, mmCIF, xml



PPLO + Xe


Overview

Potential dioxygen-binding sites in three Cu amine oxidases have been investigated by recording X-ray diffraction data at 1.7-2.2A resolution for crystals under a high pressure of xenon gas. Electron-density difference maps and crystallographic refinement provide unequivocal evidence for a number of Xe-binding sites in each enzyme. Only one of these sites is present in all three Cu amine oxidases studied. Structural changes elsewhere in the protein molecules are insignificant. The results illustrate the use of xenon as a probe for cavities, in which a protein may accommodate a dioxygen molecule. The finding of a potential dioxygen-binding cavity close to the active site of Cu amine oxidases may be relevant to the function of the enzymes, since the formation of a transient protein-dioxygen complex is a likely step in the catalytic mechanism. No evidence was found for xenon binding in a region of the molecule that was previously identified in two other Cu amine oxidases as a potential transient dioxygen-binding site.

About this Structure

1RKY is a Single protein structure of sequence from Pichia pastoris. Full crystallographic information is available from OCA.

Reference

Using xenon as a probe for dioxygen-binding sites in copper amine oxidases., Duff AP, Trambaiolo DM, Cohen AE, Ellis PJ, Juda GA, Shepard EM, Langley DB, Dooley DM, Freeman HC, Guss JM, J Mol Biol. 2004 Nov 26;344(3):599-607. PMID:15533431

Page seeded by OCA on Thu Mar 20 13:53:03 2008

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