1fl9: Difference between revisions

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-[[Image:1fl9.gif|left|200px]]
-<!--
+==THE YJEE PROTEIN==
-The line below this paragraph, containing "STRUCTURE_1fl9", creates the "Structure Box" on the page.
+<StructureSection load='1fl9' size='340' side='right'caption='[[1fl9]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1fl9]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FL9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1FL9 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene></td></tr>
-{{STRUCTURE_1fl9|  PDB=1fl9  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1fl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fl9 OCA], [https://pdbe.org/1fl9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1fl9 RCSB], [https://www.ebi.ac.uk/pdbsum/1fl9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1fl9 ProSAT]</span></td></tr>
+</table>
-'''THE YJEE PROTEIN'''
+== Function ==
+[https://www.uniprot.org/uniprot/TSAE_HAEIN TSAE_HAEIN] Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Is involved in the transfer of the threonylcarbamoyl moiety of threonylcarbamoyl-AMP (TC-AMP) to the N6 group of A37, together with TsaD and TsaB. TsaE seems to play an indirect role in the t(6)A biosynthesis pathway, possibly in regulating the core enzymatic function of TsaD (By similarity). Displays ATPase activity in vitro.<ref>PMID:12112691</ref>
+== Evolutionary Conservation ==
-==Overview==
+[[Image:Consurf_key_small.gif|200px|right]]
-A hypothetical protein encoded by the gene YjeE of Haemophilus influenzae was selected as part of a structural genomics project for X-ray analysis to assist with the functional assignment. The protein is considered essential to bacteria because the gene is present in virtually all bacterial genomes but not in those of archaea or eukaryotes. The amino acid sequence shows no homology to other proteins except for the presence of the Walker A motif G-X-X-X-X-G-K-T that indicates the possibility of a nucleotide-binding protein. The YjeE protein was cloned, expressed, and the crystal structure determined by the MAD method at 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. Crystallization of YjeE in the presence of ATP and Mg2+ resulted in the structure with ADP bound in the P-loop. The ATPase activity of YjeE was confirmed by kinetic measurements. The distribution of conserved residues suggests that the protein may work as a "molecular switch" triggered by ATP hydrolysis. The phylogenetic pattern of YjeE suggests its involvement in cell wall biosynthesis.
+Check<jmol>
+  <jmolCheckbox>
-==About this Structure==
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fl/1fl9_consurf.spt"</scriptWhenChecked>
-FL9 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Haemophilus_influenzae Haemophilus influenzae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FL9 OCA].
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
-==Reference==
+  </jmolCheckbox>
-Crystal structure of the YjeE protein from Haemophilus influenzae: a putative Atpase involved in cell wall synthesis., Teplyakov A, Obmolova G, Tordova M, Thanki N, Bonander N, Eisenstein E, Howard AJ, Gilliland GL, Proteins. 2002 Aug 1;48(2):220-6. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12112691 12112691]
+</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=1fl9 ConSurf].
+<div style="clear:both"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Haemophilus influenzae]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Gilliland, G L.]]
+[[Category: Gilliland GL]]
-[[Category: S2F, Structure 2.Function Project.]]
+[[Category: Teplyakov A]]
-[[Category: Teplyakov, A.]]
-[[Category: Nucleotide-binding fold]]
-[[Category: S2f]]
-[[Category: Structural genomic]]
-[[Category: Structure 2 function project]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 16:27:31 2008''