1ud3: Difference between revisions
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|PDB= 1ud3 |SIZE=350|CAPTION= <scene name='initialview01'>1ud3</scene>, resolution 2.15Å | |PDB= 1ud3 |SIZE=350|CAPTION= <scene name='initialview01'>1ud3</scene>, resolution 2.15Å | ||
|SITE= | |SITE= | ||
|LIGAND= <scene name='pdbligand=NA:SODIUM ION'>NA</scene> | |LIGAND= <scene name='pdbligand=NA:SODIUM+ION'>NA</scene> | ||
|ACTIVITY= [http://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Alpha-amylase Alpha-amylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.1 3.2.1.1] </span> | ||
|GENE= | |GENE= | ||
|DOMAIN= | |||
|RELATEDENTRY=[[1ud2|1UD2]], [[1ud4|1UD4]], [[1ud5|1UD5]], [[1ud6|1UD6]], [[1ud8|1UD8]] | |||
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ud3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ud3 OCA], [http://www.ebi.ac.uk/pdbsum/1ud3 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ud3 RCSB]</span> | |||
}} | }} | ||
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==About this Structure== | ==About this Structure== | ||
1UD3 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/ | 1UD3 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacteria Bacteria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UD3 OCA]. | ||
==Reference== | ==Reference== | ||
Crystal structure of calcium-free alpha-amylase from Bacillus sp. strain KSM-K38 (AmyK38) and its sodium ion binding sites., Nonaka T, Fujihashi M, Kita A, Hagihara H, Ozaki K, Ito S, Miki K, J Biol Chem. 2003 Jul 4;278(27):24818-24. Epub 2003 Apr 28. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12719434 12719434] | Crystal structure of calcium-free alpha-amylase from Bacillus sp. strain KSM-K38 (AmyK38) and its sodium ion binding sites., Nonaka T, Fujihashi M, Kita A, Hagihara H, Ozaki K, Ito S, Miki K, J Biol Chem. 2003 Jul 4;278(27):24818-24. Epub 2003 Apr 28. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12719434 12719434] | ||
[[Category: Alpha-amylase]] | [[Category: Alpha-amylase]] | ||
[[Category: | [[Category: Bacteria]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Fujihashi, M.]] | [[Category: Fujihashi, M.]] | ||
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[[Category: Nonaka, T.]] | [[Category: Nonaka, T.]] | ||
[[Category: Ozaki, K.]] | [[Category: Ozaki, K.]] | ||
[[Category: alkaline]] | [[Category: alkaline]] | ||
[[Category: alpha-amylase]] | [[Category: alpha-amylase]] | ||
[[Category: calcium-free]] | [[Category: calcium-free]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 00:08:38 2008'' | ||
Revision as of 00:08, 31 March 2008
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| , resolution 2.15Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | |||||||
| Activity: | Alpha-amylase, with EC number 3.2.1.1 | ||||||
| Related: | 1UD2, 1UD4, 1UD5, 1UD6, 1UD8
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of AmyK38 N289H mutant
OverviewOverview
The crystal structure of a calcium-free alpha-amylase (AmyK38) from Bacillus sp. strain KSM-K38, which resists chelating reagents and chemical oxidants, has been determined by the molecular replacement method and refined to a crystallographic R-factor of 19.9% (R-free of 23.2%) at 2.13-A resolution. The main chain folding of AmyK38 is almost homologous to that of Bacillus licheniformis alpha-amylase. However, neither a highly conserved calcium ion, which is located at the interface between domains A and B, nor any other calcium ions appear to exist in the AmyK38 molecule, although three sodium ions were found, one of which is located at the position corresponding to that of a highly conserved calcium ion of other alpha-amylases. The existence of these sodium ions was crystallographically confirmed by the structures of three metal-exchanged and mutated enzymes. This is the first case in which the structure of the calcium-free alpha-amylase has been determined by crystallography, and it was suggested that these sodium ions, instead of calcium ions, are used to retain the structure and function of AmyK38.
About this StructureAbout this Structure
1UD3 is a Single protein structure of sequence from Bacteria. Full crystallographic information is available from OCA.
ReferenceReference
Crystal structure of calcium-free alpha-amylase from Bacillus sp. strain KSM-K38 (AmyK38) and its sodium ion binding sites., Nonaka T, Fujihashi M, Kita A, Hagihara H, Ozaki K, Ito S, Miki K, J Biol Chem. 2003 Jul 4;278(27):24818-24. Epub 2003 Apr 28. PMID:12719434
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