2noo

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:21, 30 October 2024) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:2noo.png|left|200px]]
 
-
<!--
+
==Crystal Structure of Mutant NikA==
-
The line below this paragraph, containing "STRUCTURE_2noo", creates the "Structure Box" on the page.
+
<StructureSection load='2noo' size='340' side='right'caption='[[2noo]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[2noo]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NOO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NOO FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.65&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=TYI:3,5-DIIODOTYROSINE'>TYI</scene></td></tr>
-
{{STRUCTURE_2noo| PDB=2noo | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2noo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2noo OCA], [https://pdbe.org/2noo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2noo RCSB], [https://www.ebi.ac.uk/pdbsum/2noo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2noo ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/NIKA_ECOLI NIKA_ECOLI] Involved in a nickel transport system, probably represents the nickel binder.
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/no/2noo_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</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=2noo ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Intracellular nickel is required by Escherichia coli as a cofactor for a number of enzymes and is necessary for anaerobic respiration. However, high concentrations of nickel are toxic, so both import and export systems have evolved to control the cellular level of the metal. The nik operon in E. coli encodes a nickel-uptake system that includes the periplasmic nickel-binding protein NikA. The crystal structures of wild-type NikA both bound to nickel and in the apo form have been solved previously. The liganded structure appeared to show an unusual interaction between the nickel and the protein in which no direct bonds are formed. The highly unusual nickel coordination suggested by the crystal structure contrasted strongly with earlier X-ray spectroscopic studies. The known nickel-binding site has been probed by extensive mutagenesis and isothermal titration calorimetry and it has been found that even large numbers of disruptive mutations appear to have little effect on the nickel affinity. The crystal structure of a binding-site mutant with nickel bound has been solved and it is found that nickel is bound to two histidine residues at a position distant from the previously characterized binding site. This novel site immediately resolves the conflict between the crystal structures and other biophysical analyses. The physiological relevance of the two binding sites is discussed.
-
===Crystal Structure of Mutant NikA===
+
Nickel binding to NikA: an additional binding site reconciles spectroscopy, calorimetry and crystallography.,Addy C, Ohara M, Kawai F, Kidera A, Ikeguchi M, Fuchigami S, Osawa M, Shimada I, Park SY, Tame JR, Heddle JG Acta Crystallogr D Biol Crystallogr. 2007 Feb;63(Pt 2):221-9. Epub 2007, Jan 16. PMID:17242515<ref>PMID:17242515</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 2noo" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_17242515}}, adds the Publication Abstract to the page
+
*[[ABC transporter 3D structures|ABC transporter 3D structures]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 17242515 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_17242515}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Escherichia coli K-12]]
-
2NOO is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NOO OCA].
+
[[Category: Large Structures]]
-
 
+
[[Category: Addy C]]
-
==Reference==
+
[[Category: Fuchigami S]]
-
<ref group="xtra">PMID:17242515</ref><references group="xtra"/>
+
[[Category: Heddle JG]]
-
[[Category: Escherichia coli]]
+
[[Category: Ikeguchi M]]
-
[[Category: Nickel-transporting ATPase]]
+
[[Category: Kawai F]]
-
[[Category: Addy, C.]]
+
[[Category: Kidera A]]
-
[[Category: Fuchigami, S.]]
+
[[Category: Ohara M]]
-
[[Category: Heddle, J G.]]
+
[[Category: Osawa M]]
-
[[Category: Ikeguchi, M.]]
+
[[Category: Park SY]]
-
[[Category: Kawai, F.]]
+
[[Category: Shimada I]]
-
[[Category: Kidera, A.]]
+
[[Category: Tame JRH]]
-
[[Category: Ohara, M.]]
+
-
[[Category: Osawa, M.]]
+
-
[[Category: Park, S Y.]]
+
-
[[Category: Shimada, I.]]
+
-
[[Category: Tame, J R.H.]]
+
-
[[Category: Iodine]]
+
-
[[Category: Nickel-bound]]
+
-
[[Category: Periplasm]]
+
-
[[Category: Transport]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 03:45:16 2009''
+

Current revision

Crystal Structure of Mutant NikA

PDB ID 2noo

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools