1tz6

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1tz6" size="450" color="white" frame="true" align="right" spinBox="true" caption="1tz6, resolution 2.70&Aring;" /> '''Crystal structure of...)
Current revision (06:35, 23 August 2023) (edit) (undo)
 
(14 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1tz6.gif|left|200px]]<br /><applet load="1tz6" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1tz6, resolution 2.70&Aring;" />
 
-
'''Crystal structure of aminoimidazole riboside kinase from Salmonella enterica complexed with aminoimidazole riboside and ATP analog'''<br />
 
-
==Overview==
+
==Crystal structure of aminoimidazole riboside kinase from Salmonella enterica complexed with aminoimidazole riboside and ATP analog==
-
The crystal structures of a Salmonella enterica aminoimidazole riboside, (AIRs) kinase, its complex with the substrate AIRs, and its complex with, AIRs and an ATP analog were determined at 2.6 angstroms, 2.9 angstroms, and 2.7 angstroms, respectively. The product of the Salmonella-specific, gene stm4066, AIRs kinase, is a homodimer with one active site per, monomer. The core structure, consisting of an eight-stranded beta sheet, flanked by eight alpha helices, indicates that AIRs kinase is a member of, the ribokinase superfamily. Unlike ribokinase and adenosine kinase in this, superfamily, AIRs kinase does not show significant conformational changes, upon substrate binding. The active site is covered by a lid formed by, residues 16-28 and 86-100. A comparison of the structure of AIRs kinase, with other ribokinase superfamily members suggests that the active site, lid and conformational changes that occur upon substrate binding may be, advanced features in the evolution of the ribokinase superfamily.
+
<StructureSection load='1tz6' size='340' side='right'caption='[[1tz6]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1tz6]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium_str._LT2 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TZ6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TZ6 FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.7&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=AIS:5-AMINOIMIDAZOLE+RIBONUCLEOSIDE'>AIS</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
 +
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1tz6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tz6 OCA], [https://pdbe.org/1tz6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1tz6 RCSB], [https://www.ebi.ac.uk/pdbsum/1tz6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1tz6 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/AIRSK_SALTY AIRSK_SALTY] Phosphorylates 5-amino-1-(beta-D-ribosyl)imidazole (AIRs) to form 5-amino-1-(5-phospho-beta-D-ribosyl)imidazole (AIR), an important intermediate in the purine and thiamine biosynthetic pathways (PubMed:12486071). It allows the use of exogenous aminoimidazole riboside (AIRs) to satisfy the cellular requirement for purines and thiamine (PubMed:12486071).<ref>PMID:12486071</ref>
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/tz/1tz6_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1tz6 ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The crystal structures of a Salmonella enterica aminoimidazole riboside (AIRs) kinase, its complex with the substrate AIRs, and its complex with AIRs and an ATP analog were determined at 2.6 angstroms, 2.9 angstroms, and 2.7 angstroms, respectively. The product of the Salmonella-specific gene stm4066, AIRs kinase, is a homodimer with one active site per monomer. The core structure, consisting of an eight-stranded beta sheet flanked by eight alpha helices, indicates that AIRs kinase is a member of the ribokinase superfamily. Unlike ribokinase and adenosine kinase in this superfamily, AIRs kinase does not show significant conformational changes upon substrate binding. The active site is covered by a lid formed by residues 16-28 and 86-100. A comparison of the structure of AIRs kinase with other ribokinase superfamily members suggests that the active site lid and conformational changes that occur upon substrate binding may be advanced features in the evolution of the ribokinase superfamily.
-
==About this Structure==
+
Crystal structure of an aminoimidazole riboside kinase from Salmonella enterica: implications for the evolution of the ribokinase superfamily.,Zhang Y, Dougherty M, Downs DM, Ealick SE Structure. 2004 Oct;12(10):1809-21. PMID:15458630<ref>PMID:15458630</ref>
-
1TZ6 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Salmonella_typhimurium_lt2 Salmonella typhimurium lt2] with MG, K, ACP and AIS as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Fructokinase Fructokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.4 2.7.1.4] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1TZ6 OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
Crystal structure of an aminoimidazole riboside kinase from Salmonella enterica: implications for the evolution of the ribokinase superfamily., Zhang Y, Dougherty M, Downs DM, Ealick SE, Structure. 2004 Oct;12(10):1809-21. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15458630 15458630]
+
</div>
-
[[Category: Fructokinase]]
+
<div class="pdbe-citations 1tz6" style="background-color:#fffaf0;"></div>
-
[[Category: Salmonella typhimurium lt2]]
+
== References ==
-
[[Category: Single protein]]
+
<references/>
-
[[Category: Dougherty, M.]]
+
__TOC__
-
[[Category: Downs, D.M.]]
+
</StructureSection>
-
[[Category: Ealick, S.E.]]
+
[[Category: Large Structures]]
-
[[Category: Zhang, Y.]]
+
[[Category: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]]
-
[[Category: ACP]]
+
[[Category: Dougherty M]]
-
[[Category: AIS]]
+
[[Category: Downs DM]]
-
[[Category: K]]
+
[[Category: Ealick SE]]
-
[[Category: MG]]
+
[[Category: Zhang Y]]
-
[[Category: alpha/beta]]
+
-
[[Category: ribokinase fold]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 03:01:07 2007''
+

Current revision

Crystal structure of aminoimidazole riboside kinase from Salmonella enterica complexed with aminoimidazole riboside and ATP analog

PDB ID 1tz6

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1tz6"
Personal tools