1nmp

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(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)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1nmp.jpg|left|200px]]<br /><applet load="1nmp" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1nmp, resolution 2.20&Aring;" />
 
-
'''Structural genomics, ybgI protein, unknown function'''<br />
 
-
==Overview==
+
==Structural genomics, ybgI protein, unknown function==
-
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.
+
<StructureSection load='1nmp' size='340' side='right'caption='[[1nmp]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<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>
-
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].
+
</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>
-
 
+
<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>
-
==Reference==
+
<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>
-
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]
+
</table>
-
[[Category: Escherichia coli, and escherichia coli o157:h7]]
+
== Function ==
-
[[Category: Single protein]]
+
[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>
-
[[Category: Camerini-Otero, R.D.]]
+
== Evolutionary Conservation ==
-
[[Category: Gilliland, G.L.]]
+
[[Image:Consurf_key_small.gif|200px|right]]
-
[[Category: Khil, P.P.]]
+
Check<jmol>
-
[[Category: Ladner, J.E.]]
+
<jmolCheckbox>
-
[[Category: Obmolova, G.]]
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nm/1nmp_consurf.spt"</scriptWhenChecked>
-
[[Category: S2F, Structure.2.Function.Project.]]
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
[[Category: Teplyakov, A.]]
+
<text>to colour the structure by Evolutionary Conservation</text>
-
[[Category: MG]]
+
</jmolCheckbox>
-
[[Category: hypothetical protein]]
+
</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].
-
[[Category: s2f]]
+
<div style="clear:both"></div>
-
[[Category: structural genomics]]
+
== References ==
-
[[Category: structure 2 function project]]
+
<references/>
-
[[Category: toroidal structure]]
+
__TOC__
-
[[Category: ybgi]]
+
</StructureSection>
-
 
+
[[Category: Escherichia coli]]
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 22:23:52 2007''
+
[[Category: Escherichia coli O157:H7]]
 +
[[Category: Large Structures]]
 +
[[Category: Camerini-Otero RD]]
 +
[[Category: Gilliland GL]]
 +
[[Category: Khil PP]]
 +
[[Category: Ladner JE]]
 +
[[Category: Obmolova G]]
 +
[[Category: Teplyakov A]]

Current revision

Structural genomics, ybgI protein, unknown function

PDB ID 1nmp

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1nmp"
Personal tools