1ee1: Difference between revisions

Revision as of 14:58, 2 May 2008

CRYSTAL STRUCTURE OF NH3-DEPENDENT NAD+ SYNTHETASE FROM BACILLUS SUBTILIS COMPLEXED WITH ONE MOLECULE ATP, TWO MOLECULES DEAMIDO-NAD+ AND ONE MG2+ ION

OverviewOverview

The NH(3)-dependent NAD(+) synthetase (NADS) participates in the biosynthesis of nicotinamide adenine dinucleotide (NAD(+)) by transforming nicotinic acid adenine dinucleotide (NaAD) to NAD(+). The structural behavior of the active site, including stabilization of flexible loops 82-87 and 204-225, has been studied by determination of the crystal structures of complexes of NADS with natural substrates and a substrate analog. Both loops are stabilized independently of NaAD and solely from the ATP-binding site. Analysis of the binding contacts suggests that the minor loop 82-87 is stabilized primarily by a hydrogen bond with the adenine base of ATP. Formation of a coordination complex with Mg(2+) in the ATP-binding site may contribute to the stabilization of the major loop 204-225. The major loop has a role in substrate recognition and stabilization, in addition to the protection of the reaction intermediate described previously. A second and novel Mg(2+) position has been observed closer to the NaAD-binding site in the structure crystallized at pH 7.5, where the enzyme is active. This could therefore be the catalytically active Mg(2+).

About this StructureAbout this Structure

1EE1 is a Single protein structure of sequence from Bacillus subtilis. Full crystallographic information is available from OCA.

ReferenceReference

Stabilization of active-site loops in NH3-dependent NAD+ synthetase from Bacillus subtilis., Devedjiev Y, Symersky J, Singh R, Jedrzejas M, Brouillette C, Brouillette W, Muccio D, Chattopadhyay D, DeLucas L, Acta Crystallogr D Biol Crystallogr. 2001 Jun;57(Pt 6):806-12. Epub 2001, May 25. PMID:11375500 Page seeded by OCA on Fri May 2 14:58:52 2008

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OCA

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 [[Image:1ee1.jpg|left|200px]]
- {{Structure
+<!--
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+The line below this paragraph, containing "STRUCTURE_1ee1", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=ATP:ADENOSINE-5&#39;-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=DND:NICOTINIC+ACID+ADENINE+DINUCLEOTIDE'>DND</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(+)_synthase_(glutamine-hydrolyzing) NAD(+) synthase (glutamine-hydrolyzing)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.5.1 6.3.5.1] </span>
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-|GENE= NADE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])
+-->
-|DOMAIN=
+{{STRUCTURE_1ee1|  PDB=1ee1  |  SCENE=  }}
-|RELATEDENTRY=[[1nsy|1nsy]], [[1ifx|1IFX]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ee1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ee1 OCA], [http://www.ebi.ac.uk/pdbsum/1ee1 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ee1 RCSB]</span>
-}}
 '''CRYSTAL STRUCTURE OF NH3-DEPENDENT NAD+ SYNTHETASE FROM BACILLUS SUBTILIS COMPLEXED WITH ONE MOLECULE ATP, TWO MOLECULES DEAMIDO-NAD+ AND ONE MG2+ ION'''
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 Stabilization of active-site loops in NH3-dependent NAD+ synthetase from Bacillus subtilis., Devedjiev Y, Symersky J, Singh R, Jedrzejas M, Brouillette C, Brouillette W, Muccio D, Chattopadhyay D, DeLucas L, Acta Crystallogr D Biol Crystallogr. 2001 Jun;57(Pt 6):806-12. Epub 2001, May 25. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11375500 11375500]
 [[Category: Bacillus subtilis]]
-[[Category: NAD(+) synthase (glutamine-hydrolyzing)]]
 [[Category: Single protein]]
 [[Category: Brouillette, C.]]
@@ Line 35: / Line 31: @@
 [[Category: Singh, R.]]
 [[Category: Symersky, J.]]
-[[Category: amidotransferase]]
+[[Category: Amidotransferase]]
-[[Category: atp pyrophosphatase]]
+[[Category: Atp pyrophosphatase]]
-[[Category: lyase]]
+[[Category: Lyase]]
-[[Category: nh3 dependent]]
+[[Category: Nh3 dependent]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 14:58:52 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 20:00:45 2008''