1n05: Difference between revisions

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-[[Image:1n05.gif|left|200px]]
- {{Structure
+==Crystal Structure of Schizosaccharomyces pombe Riboflavin Kinase Reveals a Novel ATP and Riboflavin Binding Fold==
-|PDB= 1n05 |SIZE=350|CAPTION= <scene name='initialview01'>1n05</scene>, resolution 2.1&Aring;
+<StructureSection load='1n05' size='340' side='right'caption='[[1n05]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND=
+<table><tr><td colspan='2'>[[1n05]] 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=1N05 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1N05 FirstGlance]. <br>
-|ACTIVITY= [http://en.wikipedia.org/wiki/Riboflavin_kinase Riboflavin kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.26 2.7.1.26]
+</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>
-|GENE= SPCC18.16C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4896 Schizosaccharomyces pombe])
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1n05 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n05 OCA], [https://pdbe.org/1n05 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1n05 RCSB], [https://www.ebi.ac.uk/pdbsum/1n05 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1n05 ProSAT]</span></td></tr>
-}}
+</table>
+== Function ==
-'''Crystal Structure of Schizosaccharomyces pombe Riboflavin Kinase Reveals a Novel ATP and Riboflavin Binding Fold'''
+[https://www.uniprot.org/uniprot/RIFK_SCHPO RIFK_SCHPO] Catalyzes the phosphorylation of riboflavin (vitamin B2) to form flavin mononucleotide (FMN) coenzyme.
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
-==Overview==
+Check<jmol>
-The essential redox cofactors riboflavin monophosphate (FMN) and flavin adenine dinucleotide (FAD) are synthesised from their precursor, riboflavin, in sequential reactions by the metal-dependent riboflavin kinase and FAD synthetase. Here, we describe the 1.6A crystal structure of the Schizosaccharomyces pombe riboflavin kinase. The enzyme represents a novel family of phosphoryl transferring enzymes. It is a monomer comprising a central beta-barrel clasped on one side by two C-terminal helices that display an L-like shape. The opposite side of the beta-barrel serves as a platform for substrate binding as demonstrated by complexes with ADP and FMN. Formation of the ATP-binding site requires significant rearrangements in a short alpha-helix as compared to the substrate free form. The diphosphate moiety of ADP is covered by the glycine-rich flap I formed from parts of this alpha-helix. In contrast, no significant changes are observed upon binding of riboflavin. The ribityl side-chain might be covered by a rather flexible flap II. The unusual metal-binding site involves, in addition to the ADP phosphates, only the strictly conserved Thr45. This may explain the preference for zinc observed in vitro.
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/n0/1n05_consurf.spt"</scriptWhenChecked>
-==About this Structure==
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-N05 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1N05 OCA].
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
-==Reference==
+</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=1n05 ConSurf].
-Crystal structure of Schizosaccharomyces pombe riboflavin kinase reveals a novel ATP and riboflavin-binding fold., Bauer S, Kemter K, Bacher A, Huber R, Fischer M, Steinbacher S, J Mol Biol. 2003 Mar 7;326(5):1463-73. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12595258 12595258]
+<div style="clear:both"></div>
-[[Category: Riboflavin kinase]]
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Schizosaccharomyces pombe]]
-[[Category: Single protein]]
+[[Category: Bacher A]]
-[[Category: Bacher, A.]]
+[[Category: Bauer S]]
-[[Category: Bauer, S.]]
+[[Category: Fischer M]]
-[[Category: Fischer, M.]]
+[[Category: Huber R]]
-[[Category: Huber, R.]]
+[[Category: Kemter K]]
-[[Category: Kemter, K.]]
+[[Category: Steinbacher S]]
-[[Category: Steinbacher, S.]]
-[[Category: flavin cofactor]]
-[[Category: kinase]]
-[[Category: metal binding]]
-[[Category: phosphoryl transferase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 12:50:24 2008''