1mdx

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(New page: 200px<br /><applet load="1mdx" size="450" color="white" frame="true" align="right" spinBox="true" caption="1mdx, resolution 1.96&Aring;" /> '''Crystal structure of...)
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[[Image:1mdx.gif|left|200px]]<br /><applet load="1mdx" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1mdx, resolution 1.96&Aring;" />
 
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'''Crystal structure of ArnB transferase with pyridoxal 5' phosphate'''<br />
 
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==Overview==
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==Crystal structure of ArnB transferase with pyridoxal 5' phosphate==
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Lipid A modification with 4-amino-4-deoxy-L-arabinose confers on certain, pathogenic bacteria, such as Salmonella, resistance to cationic, antimicrobial peptides, including those derived from the innate immune, system. ArnB catalysis of amino group transfer from glutamic acid to the, 4"-position of a UDP-linked ketopyranose molecule to form, UDP-4-amino-4-deoxy-L-arabinose represents a key step in the lipid A, modification pathway. Structural and functional studies of the ArnB, aminotransferase were undertaken by combining X-ray crystallography with, biochemical analyses. High-resolution crystal structures were solved for, two native forms and one covalently inhibited form of S. typhimurium ArnB., These structures permitted identification of key residues involved in, substrate binding and catalysis, including a rarely observed nonprolyl cis, peptide bond in the active site.
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<StructureSection load='1mdx' size='340' side='right'caption='[[1mdx]], [[Resolution|resolution]] 1.96&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1mdx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium Salmonella enterica subsp. enterica serovar Typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MDX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MDX 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]] 1.96&#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=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>
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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=1mdx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mdx OCA], [https://pdbe.org/1mdx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mdx RCSB], [https://www.ebi.ac.uk/pdbsum/1mdx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mdx ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/ARNB_SALTY ARNB_SALTY] Catalyzes the conversion of UDP-4-keto-arabinose (UDP-Ara4O) to UDP-4-amino-4-deoxy-L-arabinose (UDP-L-Ara4N). The modified arabinose is attached to lipid A and is required for resistance to polymyxin and cationic antimicrobial peptides (By similarity).[HAMAP-Rule:MF_01167]
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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/md/1mdx_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1mdx 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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Lipid A modification with 4-amino-4-deoxy-L-arabinose confers on certain pathogenic bacteria, such as Salmonella, resistance to cationic antimicrobial peptides, including those derived from the innate immune system. ArnB catalysis of amino group transfer from glutamic acid to the 4"-position of a UDP-linked ketopyranose molecule to form UDP-4-amino-4-deoxy-L-arabinose represents a key step in the lipid A modification pathway. Structural and functional studies of the ArnB aminotransferase were undertaken by combining X-ray crystallography with biochemical analyses. High-resolution crystal structures were solved for two native forms and one covalently inhibited form of S. typhimurium ArnB. These structures permitted identification of key residues involved in substrate binding and catalysis, including a rarely observed nonprolyl cis peptide bond in the active site.
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==About this Structure==
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Structural studies of Salmonella typhimurium ArnB (PmrH) aminotransferase: a 4-amino-4-deoxy-L-arabinose lipopolysaccharide-modifying enzyme.,Noland BW, Newman JM, Hendle J, Badger J, Christopher JA, Tresser J, Buchanan MD, Wright TA, Rutter ME, Sanderson WE, Muller-Dieckmann HJ, Gajiwala KS, Buchanan SG Structure. 2002 Nov;10(11):1569-80. PMID:12429098<ref>PMID:12429098</ref>
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1MDX is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Salmonella_typhimurium Salmonella typhimurium] with PLP, AKG and GOL as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1MDX OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Structural studies of Salmonella typhimurium ArnB (PmrH) aminotransferase: a 4-amino-4-deoxy-L-arabinose lipopolysaccharide-modifying enzyme., Noland BW, Newman JM, Hendle J, Badger J, Christopher JA, Tresser J, Buchanan MD, Wright TA, Rutter ME, Sanderson WE, Muller-Dieckmann HJ, Gajiwala KS, Buchanan SG, Structure. 2002 Nov;10(11):1569-80. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12429098 12429098]
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</div>
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[[Category: Salmonella typhimurium]]
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<div class="pdbe-citations 1mdx" style="background-color:#fffaf0;"></div>
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[[Category: Single protein]]
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[[Category: Badger, J.]]
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[[Category: Buchanan, M.D.]]
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[[Category: Buchanan, S.G.]]
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[[Category: Christopher, J.A.]]
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[[Category: Gajiwala, K.S.]]
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[[Category: Hendle, J.]]
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[[Category: Muller-Dieckmann, H.J.]]
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[[Category: Newman, J.M.]]
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[[Category: Noland, B.W.]]
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[[Category: Rutter, M.E.]]
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[[Category: Sanderson, W.E.]]
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[[Category: Tresser, J.]]
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[[Category: Wright, T.A.]]
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[[Category: AKG]]
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[[Category: GOL]]
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[[Category: PLP]]
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[[Category: type 1 aminotransferase fold]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 21:21:16 2007''
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==See Also==
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*[[Aminotransferase 3D structures|Aminotransferase 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Salmonella enterica subsp. enterica serovar Typhimurium]]
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[[Category: Badger J]]
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[[Category: Buchanan MD]]
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[[Category: Buchanan SG]]
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[[Category: Christopher JA]]
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[[Category: Gajiwala KS]]
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[[Category: Hendle J]]
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[[Category: Muller-Dieckmann H-J]]
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[[Category: Newman JM]]
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[[Category: Noland BW]]
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[[Category: Rutter ME]]
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[[Category: Sanderson WE]]
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[[Category: Sauder JM]]
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[[Category: Tresser J]]
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[[Category: Wright TA]]

Current revision

Crystal structure of ArnB transferase with pyridoxal 5' phosphate

PDB ID 1mdx

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