1xrs: Difference between revisions
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[[Image:1xrs.jpg|left|200px]] | [[Image:1xrs.jpg|left|200px]] | ||
'''Crystal structure of Lysine 5,6-Aminomutase in complex with PLP, cobalamin, and 5'-deoxyadenosine''' | {{Structure | ||
|PDB= 1xrs |SIZE=350|CAPTION= <scene name='initialview01'>1xrs</scene>, resolution 2.80Å | |||
|SITE= | |||
|LIGAND= <scene name='pdbligand=B12:COBALAMIN'>B12</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5'-PHOSPHATE'>PLP</scene> and <scene name='pdbligand=5AD:5'-DEOXYADENOSINE'>5AD</scene> | |||
|ACTIVITY= [http://en.wikipedia.org/wiki/Beta-lysine_5,6-aminomutase Beta-lysine 5,6-aminomutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.4.3.3 5.4.3.3] | |||
|GENE= KamDE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1511 Clostridium sticklandii]) | |||
}} | |||
'''Crystal structure of Lysine 5,6-Aminomutase in complex with PLP, cobalamin, and 5'-deoxyadenosine''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
1XRS is a [ | 1XRS is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Clostridium_sticklandii Clostridium sticklandii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XRS OCA]. | ||
==Reference== | ==Reference== | ||
A locking mechanism preventing radical damage in the absence of substrate, as revealed by the x-ray structure of lysine 5,6-aminomutase., Berkovitch F, Behshad E, Tang KH, Enns EA, Frey PA, Drennan CL, Proc Natl Acad Sci U S A. 2004 Nov 9;101(45):15870-5. Epub 2004 Oct 28. PMID:[http:// | A locking mechanism preventing radical damage in the absence of substrate, as revealed by the x-ray structure of lysine 5,6-aminomutase., Berkovitch F, Behshad E, Tang KH, Enns EA, Frey PA, Drennan CL, Proc Natl Acad Sci U S A. 2004 Nov 9;101(45):15870-5. Epub 2004 Oct 28. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15514022 15514022] | ||
[[Category: Beta-lysine 5,6-aminomutase]] | [[Category: Beta-lysine 5,6-aminomutase]] | ||
[[Category: Clostridium sticklandii]] | [[Category: Clostridium sticklandii]] | ||
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[[Category: tim barrel]] | [[Category: tim barrel]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:13:50 2008'' | ||
Revision as of 16:13, 20 March 2008
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| , resolution 2.80Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , and | ||||||
| Gene: | KamDE (Clostridium sticklandii) | ||||||
| Activity: | Beta-lysine 5,6-aminomutase, with EC number 5.4.3.3 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of Lysine 5,6-Aminomutase in complex with PLP, cobalamin, and 5'-deoxyadenosine
OverviewOverview
Lysine 5,6-aminomutase is an adenosylcobalamin and pyridoxal-5'-phosphate-dependent enzyme that catalyzes a 1,2 rearrangement of the terminal amino group of dl-lysine and of l-beta-lysine. We have solved the x-ray structure of a substrate-free form of lysine-5,6-aminomutase from Clostridium sticklandii. In this structure, a Rossmann domain covalently binds pyridoxal-5'-phosphate by means of lysine 144 and positions it into the putative active site of a neighboring triosephosphate isomerase barrel domain, while simultaneously positioning the other cofactor, adenosylcobalamin, approximately 25 A from the active site. In this mode of pyridoxal-5'-phosphate binding, the cofactor acts as an anchor, tethering the separate polypeptide chain of the Rossmann domain to the triosephosphate isomerase barrel domain. Upon substrate binding and transaldimination of the lysine-144 linkage, the Rossmann domain would be free to rotate and bring adenosylcobalamin, pyridoxal-5'-phosphate, and substrate into proximity. Thus, the structure embodies a locking mechanism to keep the adenosylcobalamin out of the active site and prevent radical generation in the absence of substrate.
About this StructureAbout this Structure
1XRS is a Protein complex structure of sequences from Clostridium sticklandii. Full crystallographic information is available from OCA.
ReferenceReference
A locking mechanism preventing radical damage in the absence of substrate, as revealed by the x-ray structure of lysine 5,6-aminomutase., Berkovitch F, Behshad E, Tang KH, Enns EA, Frey PA, Drennan CL, Proc Natl Acad Sci U S A. 2004 Nov 9;101(45):15870-5. Epub 2004 Oct 28. PMID:15514022
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