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1yav

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[[Image:1yav.jpg|left|200px]]
 
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{{Structure
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==Crystal structure of CBS domain-containing protein ykuL from Bacillus subtilis==
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|PDB= 1yav |SIZE=350|CAPTION= <scene name='initialview01'>1yav</scene>, resolution 2.10&Aring;
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<StructureSection load='1yav' size='340' side='right'caption='[[1yav]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
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<table><tr><td colspan='2'>[[1yav]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YAV FirstGlance]. <br>
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|ACTIVITY=
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</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>
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|GENE= ykuL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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|DOMAIN=<span class='plainlinks'>[http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=cd04643 CBS_pair_30], [http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=cd04584 CBS_pair_ACT_assoc]</span>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yav OCA], [https://pdbe.org/1yav PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yav RCSB], [https://www.ebi.ac.uk/pdbsum/1yav PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yav ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/1yav TOPSAN]</span></td></tr>
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|RELATEDENTRY=
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</table>
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yav FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yav OCA], [http://www.ebi.ac.uk/pdbsum/1yav PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1yav RCSB]</span>
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== Function ==
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}}
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[https://www.uniprot.org/uniprot/DARB_BACSU DARB_BACSU] Involved in the c-di-AMP-dependent regulation of the bacterial stringent response (PubMed:33619274, PubMed:35130724). Modulates the activities of at least two enzymes under conditions of potassium limitation (PubMed:33619274, PubMed:35130724). Apo-DarB regulates the activity of the GTP pyrophosphokinase RelA by interacting directly with RelA, leading to stimulation of (p)ppGpp synthesis and induction of the stringent response (PubMed:33619274). Apo-DarB also regulates pyruvate carboxylase (PYC) at two levels: directly at the protein level by binding to the enzyme and stimulating the synthesis of oxaloacetate and indirectly, by interaction with RelA, which leads to activation of the stringent response and to the increased expression of the pycA gene (PubMed:35130724). Stimulation of these enzymes by DarB is prevented in the presence of cyclic di-AMP (c-di-AMP) (PubMed:33619274, PubMed:35130724).<ref>PMID:33619274</ref> <ref>PMID:35130724</ref>
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== Evolutionary Conservation ==
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'''Crystal structure of CBS domain-containing protein ykuL from Bacillus subtilis'''
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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==About this Structure==
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ya/1yav_consurf.spt"</scriptWhenChecked>
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1YAV is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YAV OCA].
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1yav ConSurf].
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<div style="clear:both"></div>
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== References ==
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<references/>
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__TOC__
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</StructureSection>
[[Category: Bacillus subtilis]]
[[Category: Bacillus subtilis]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Burley, S K.]]
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[[Category: Burley SK]]
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[[Category: Kumaran, D.]]
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[[Category: Kumaran D]]
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[[Category: NYSGXRC, New York Structural GenomiX Research Consortium.]]
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[[Category: Swaminathan S]]
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[[Category: Swaminathan, S.]]
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[[Category: cystathionine beta synthase (cbs) domain]]
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[[Category: new york structural genomix research consortium]]
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[[Category: nysgxrc]]
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[[Category: protein structure initiative]]
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[[Category: psi]]
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[[Category: structural genomic]]
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[[Category: sulfur sad technique]]
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[[Category: t1655]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:01:03 2008''
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Current revision

Crystal structure of CBS domain-containing protein ykuL from Bacillus subtilis

PDB ID 1yav

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