1kzl

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1kzl" size="450" color="white" frame="true" align="right" spinBox="true" caption="1kzl, resolution 2.1&Aring;" /> '''Riboflavin Synthase f...)
Current revision (13:26, 13 March 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1kzl.jpg|left|200px]]<br /><applet load="1kzl" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1kzl, resolution 2.1&Aring;" />
 
-
'''Riboflavin Synthase from S.pombe bound to Carboxyethyllumazine'''<br />
 
-
==Overview==
+
==Riboflavin Synthase from S.pombe bound to Carboxyethyllumazine==
-
Riboflavin synthase catalyzes the disproportionation of, 6,7-dimethyl-8-ribityllumazine affording riboflavin and, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione. We have determined the, structure of riboflavin synthase from Schizosaccharomyces pombe in complex, with the substrate analog, 6-carboxyethyl-7-oxo-8-ribityllumazine at 2.1 A, resolution. In contrast to the homotrimeric solution state of native, riboflavin synthase, we found the enzyme to be monomeric in the crystal, structure. Structural comparison of the riboflavin synthases of S. pombe, and Escherichia coli suggests oligomer contact sites and delineates the, catalytic site for dimerization of the substrate and subsequent, fragmentation of the pentacyclic intermediate. The pentacyclic substrate, dimer was modeled into the proposed active site, and its stereochemical, features were determined. The model suggests that the substrate molecule, at the C-terminal domain donates a four-carbon unit to the substrate, molecule bound at the N-terminal domain of an adjacent subunit in the, oligomer.
+
<StructureSection load='1kzl' size='340' side='right'caption='[[1kzl]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[1kzl]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KZL FirstGlance]. <br>
-
1KZL is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe] with HG and CRM as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Riboflavin_synthase Riboflavin synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.9 2.5.1.9] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1KZL OCA].
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
-
 
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CRM:3-[8-((2S,3S,4R)-2,3,4,5-TETRAHYDROXYPENTYL)-2,4,7-TRIOXO-1,3,8-TRIHYDROPTERIDIN-6-YL]PROPANOIC+ACID'>CRM</scene>, <scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene></td></tr>
-
==Reference==
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1kzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kzl OCA], [https://pdbe.org/1kzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kzl RCSB], [https://www.ebi.ac.uk/pdbsum/1kzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kzl ProSAT]</span></td></tr>
-
Studies on the reaction mechanism of riboflavin synthase: X-ray crystal structure of a complex with 6-carboxyethyl-7-oxo-8-ribityllumazine., Gerhardt S, Schott AK, Kairies N, Cushman M, Illarionov B, Eisenreich W, Bacher A, Huber R, Steinbacher S, Fischer M, Structure. 2002 Oct;10(10):1371-81. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12377123 12377123]
+
</table>
-
[[Category: Riboflavin synthase]]
+
== Function ==
 +
[https://www.uniprot.org/uniprot/RISA_SCHPO RISA_SCHPO] Catalyzes the dismutation of two molecules of 6,7-dimethyl-8-ribityllumazine, resulting in the formation of riboflavin and 5-amino-6-(D-ribitylamino)uracil.
 +
== 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/kz/1kzl_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=1kzl ConSurf].
 +
<div style="clear:both"></div>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Schizosaccharomyces pombe]]
[[Category: Schizosaccharomyces pombe]]
-
[[Category: Single protein]]
+
[[Category: Bacher A]]
-
[[Category: Bacher, A.]]
+
[[Category: Cushman M]]
-
[[Category: Cushman, M.]]
+
[[Category: Eisenreich W]]
-
[[Category: Eisenreich, W.]]
+
[[Category: Fischer M]]
-
[[Category: Fischer, M.]]
+
[[Category: Gerhardt S]]
-
[[Category: Gerhardt, S.]]
+
[[Category: Huber R]]
-
[[Category: Huber, R.]]
+
[[Category: Illarionov B]]
-
[[Category: Illarionov, B.]]
+
[[Category: Kairies N]]
-
[[Category: Kairies, N.]]
+
[[Category: Schott AK]]
-
[[Category: Schott, A.K.]]
+
[[Category: Steinbacher S]]
-
[[Category: Steinbacher, S.]]
+
-
[[Category: CRM]]
+
-
[[Category: HG]]
+
-
[[Category: biosynthesis of riboflavin]]
+
-
[[Category: ligand binding]]
+
-
[[Category: riboflavin synthase]]
+
-
[[Category: schizosaccharomyces pombe]]
+
-
[[Category: x-ray structure]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 20:06:04 2007''
+

Current revision

Riboflavin Synthase from S.pombe bound to Carboxyethyllumazine

PDB ID 1kzl

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/1kzl"
Personal tools