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1nmp

From Proteopedia

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(New page: 200px<br /><applet load="1nmp" size="450" color="white" frame="true" align="right" spinBox="true" caption="1nmp, resolution 2.20&Aring;" /> '''Structural genomics,...)
Current revision (07:57, 14 February 2024) (edit) (undo)
 
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[[Image:1nmp.jpg|left|200px]]<br /><applet load="1nmp" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1nmp, resolution 2.20&Aring;" />
 
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'''Structural genomics, ybgI protein, unknown function'''<br />
 
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==Overview==
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==Structural genomics, ybgI protein, unknown function==
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BACKGROUND: The protein encoded by the gene ybgI was chosen as a target, for a structural genomics project emphasizing the relation of protein, structure to function. RESULTS: The structure of the ybgI protein is a, toroid composed of six polypeptide chains forming a trimer of dimers. Each, polypeptide chain binds two metal ions on the inside of the toroid., CONCLUSION: The toroidal structure is comparable to that of some proteins, that are involved in DNA metabolism. The di-nuclear metal site could imply, that the specific function of this protein is as a hydrolase-oxidase, enzyme.
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<StructureSection load='1nmp' size='340' side='right'caption='[[1nmp]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1nmp]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Escherichia_coli_O157:H7 Escherichia coli O157:H7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NMP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NMP FirstGlance]. <br>
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1NMP is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli,_and_escherichia_coli_o157:h7 Escherichia coli, and escherichia coli o157:h7] with MG as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1NMP OCA].
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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]] 2.2&#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=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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==Reference==
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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=1nmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nmp OCA], [https://pdbe.org/1nmp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nmp RCSB], [https://www.ebi.ac.uk/pdbsum/1nmp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nmp ProSAT]</span></td></tr>
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Crystal structure of Escherichia coli protein ybgI, a toroidal structure with a dinuclear metal site., Ladner JE, Obmolova G, Teplyakov A, Howard AJ, Khil PP, Camerini-Otero RD, Gilliland GL, BMC Struct Biol. 2003 Sep 30;3:7. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14519207 14519207]
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</table>
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[[Category: Escherichia coli, and escherichia coli o157:h7]]
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== Function ==
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[[Category: Single protein]]
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[https://www.uniprot.org/uniprot/GCH1L_ECOLI GCH1L_ECOLI] Provides significant protection from radiation damage and may be involved in the degradation of radiation-damaged nucleotides.<ref>PMID:25049088</ref>
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[[Category: Camerini-Otero, R.D.]]
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== Evolutionary Conservation ==
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[[Category: Gilliland, G.L.]]
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[[Image:Consurf_key_small.gif|200px|right]]
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[[Category: Khil, P.P.]]
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Check<jmol>
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[[Category: Ladner, J.E.]]
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<jmolCheckbox>
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[[Category: Obmolova, G.]]
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nm/1nmp_consurf.spt"</scriptWhenChecked>
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[[Category: S2F, Structure.2.Function.Project.]]
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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[[Category: Teplyakov, A.]]
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<text>to colour the structure by Evolutionary Conservation</text>
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[[Category: MG]]
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</jmolCheckbox>
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[[Category: hypothetical protein]]
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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=1nmp ConSurf].
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[[Category: s2f]]
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<div style="clear:both"></div>
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[[Category: structural genomics]]
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== References ==
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[[Category: structure 2 function project]]
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<references/>
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[[Category: toroidal structure]]
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__TOC__
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[[Category: ybgi]]
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</StructureSection>
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[[Category: Escherichia coli]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 22:23:52 2007''
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[[Category: Escherichia coli O157:H7]]
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[[Category: Large Structures]]
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[[Category: Camerini-Otero RD]]
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[[Category: Gilliland GL]]
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[[Category: Khil PP]]
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[[Category: Ladner JE]]
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[[Category: Obmolova G]]
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[[Category: Teplyakov A]]

Current revision

Structural genomics, ybgI protein, unknown function

PDB ID 1nmp

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