2wbp

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{{Seed}}
 
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[[Image:2wbp.jpg|left|200px]]
 
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==Crystal structure of VioC in complex with Fe(II), (2S,3S)- hydroxyarginine, and succinate==
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The line below this paragraph, containing "STRUCTURE_2wbp", creates the "Structure Box" on the page.
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<StructureSection load='2wbp' size='340' side='right'caption='[[2wbp]], [[Resolution|resolution]] 1.16&Aring;' scene=''>
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2wbp]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_vinaceus Streptomyces vinaceus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WBP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WBP FirstGlance]. <br>
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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]] 1.16&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ARG:ARGININE'>ARG</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SIN:SUCCINIC+ACID'>SIN</scene>, <scene name='pdbligand=ZZU:(2S,3S)-3-HYDROXYARGININE'>ZZU</scene></td></tr>
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{{STRUCTURE_2wbp| PDB=2wbp | SCENE= }}
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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=2wbp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wbp OCA], [https://pdbe.org/2wbp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2wbp RCSB], [https://www.ebi.ac.uk/pdbsum/2wbp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2wbp ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/ARGHX_STRVI ARGHX_STRVI] Involved in the biosynthesis of capreomycidine, an unusual amino acid used by non-ribosomal peptide synthases (NRPS) to make the tuberactinomycin class of peptide antibiotics such as viomycin and capreomycin. Catalyzes the stereospecific hydroxylation of the C3 of (2S)-arginine to generate (3S)-hydroxy-(2S)-arginine. Usually clavaminic acid synthase-like oxygenases catalyze the formation of threo diastereomers, however VioC produces the erythro diastereomer of beta-carbon-hydroxylated L-arginine. It exerts a broad substrate specificity by accepting the analogs L-homoarginine and L-canavanine for the beta-carbon hydroxylation.<ref>PMID:15368580</ref> <ref>PMID:15368582</ref> <ref>PMID:19490124</ref>
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== Evolutionary Conservation ==
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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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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wb/2wbp_consurf.spt"</scriptWhenChecked>
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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=2wbp ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The nonheme iron oxygenase VioC from Streptomyces vinaceus catalyzes Fe(II)-dependent and alpha-ketoglutarate-dependent Cbeta-hydroxylation of L-arginine during the biosynthesis of the tuberactinomycin antibiotic viomycin. Crystal structures of VioC were determined in complexes with the cofactor Fe(II), the substrate L-arginine, the product (2S,3S)-hydroxyarginine and the coproduct succinate at 1.1-1.3 A resolution. The overall structure reveals a beta-helix core fold with two additional helical subdomains that are common to nonheme iron oxygenases of the clavaminic acid synthase-like superfamily. In contrast to other clavaminic acid synthase-like oxygenases, which catalyze the formation of threo diastereomers, VioC produces the erythro diastereomer of Cbeta-hydroxylated L-arginine. This unexpected stereospecificity is caused by conformational control of the bound substrate, which enforces a gauche(-) conformer for chi(1) instead of the trans conformers observed for the asparagine oxygenase AsnO and other members of the clavaminic acid synthase-like superfamily. Additionally, the substrate specificity of VioC was investigated. The side chain of the L-arginine substrate projects outwards from the active site by undergoing interactions mainly with the C-terminal helical subdomain. Accordingly, VioC exerts broadened substrate specificity by accepting the analogs L-homoarginine and L-canavanine for Cbeta-hydroxylation.
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===CRYSTAL STRUCTURE OF VIOC IN COMPLEX WITH FE(II), (2S,3S)-HYDROXYARGININE, AND SUCCINATE===
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Structural basis for the erythro-stereospecificity of the L-arginine oxygenase VioC in viomycin biosynthesis.,Helmetag V, Samel SA, Thomas MG, Marahiel MA, Essen LO FEBS J. 2009 Jul;276(13):3669-82. Epub 2009 May 26. PMID:19490124<ref>PMID:19490124</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2wbp" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_19490124}}, adds the Publication Abstract to the page
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*[[Hydroxylases 3D structures|Hydroxylases 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 19490124 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19490124}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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2WBP is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Streptomyces_vinaceus Streptomyces vinaceus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WBP OCA].
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==Reference==
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<ref group="xtra">PMID:19490124</ref><references group="xtra"/>
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[[Category: Streptomyces vinaceus]]
[[Category: Streptomyces vinaceus]]
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[[Category: Essen, L O.]]
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[[Category: Essen L-O]]
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[[Category: Helmetag, V.]]
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[[Category: Helmetag V]]
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[[Category: Marahiel, M A.]]
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[[Category: Marahiel MA]]
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[[Category: Samel, S A.]]
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[[Category: Samel SA]]
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[[Category: Thomas, M G.]]
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[[Category: Thomas MG]]
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[[Category: Alpha-ketoglutarate]]
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[[Category: Cbeta-hydroxylation]]
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[[Category: L-arginine oxygenase]]
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[[Category: Nrp]]
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[[Category: Oxidoreductase]]
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[[Category: Viomycin]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jun 25 09:14:15 2009''
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Current revision

Crystal structure of VioC in complex with Fe(II), (2S,3S)- hydroxyarginine, and succinate

PDB ID 2wbp

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