This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1ib5

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1ib5" size="450" color="white" frame="true" align="right" spinBox="true" caption="1ib5, resolution 2.45&Aring;" /> '''X-RAY 3D STRUCTURE O...)
Current revision (06:01, 3 April 2024) (edit) (undo)
 
(17 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1ib5.gif|left|200px]]<br /><applet load="1ib5" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1ib5, resolution 2.45&Aring;" />
 
-
'''X-RAY 3D STRUCTURE OF P.LEIOGNATHI CU,ZN SOD MUTANT W83Y'''<br />
 
-
==Overview==
+
==X-RAY 3D STRUCTURE OF P.LEIOGNATHI CU,ZN SOD MUTANT W83Y==
-
The functional properties and X-ray structures of five mutant forms of, Photobacterium leiognathi Cu,Zn superoxide dismutase carrying single, mutations at residues located at the dimer association interface have been, investigated. When compared to the wild-type enzyme, the three-dimensional, structures of the mutants show structural perturbations limited to the, proximity of the mutation sites and substantial identity of active site, geometry. Nonetheless, the catalytic rates of all mutants, measured at, neutral pH and low ionic strength by pulse radiolysis, are higher than, that of the wild-type protein. Such enzymatic activity increase is, paralleled by enhanced active site accessibility to external chelating, agents, which, in the mutated enzyme, remove more readily the active site, copper ion. It is concluded that mutations at the prokaryotic Cu,Zn, superoxide dismutase subunit interface can transduce dynamical, perturbation to the active site region, promoting substrate active site, accessibility. Such long-range intramolecular communication effects have, not been extensively described before within the Cu,Zn superoxide, dismutase homology family.
+
<StructureSection load='1ib5' size='340' side='right'caption='[[1ib5]], [[Resolution|resolution]] 2.45&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1ib5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Photobacterium_leiognathi_subsp._leiognathi Photobacterium leiognathi subsp. leiognathi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IB5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IB5 FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.45&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
 +
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ib5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ib5 OCA], [https://pdbe.org/1ib5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ib5 RCSB], [https://www.ebi.ac.uk/pdbsum/1ib5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ib5 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/SODC_PHOLE SODC_PHOLE] Destroys radicals which are normally produced within the cells and which are toxic to biological systems.
 +
== 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/ib/1ib5_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1ib5 ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1IB5 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Photobacterium_leiognathi Photobacterium leiognathi] with ZN and CU as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1IB5 OCA].
+
*[[Superoxide dismutase 3D structures|Superoxide dismutase 3D structures]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
Single mutations at the subunit interface modulate copper reactivity in Photobacterium leiognathi Cu,Zn superoxide dismutase., Stroppolo ME, Pesce A, D'Orazio M, O'Neill P, Bordo D, Rosano C, Milani M, Battistoni A, Bolognesi M, Desideri A, J Mol Biol. 2001 May 4;308(3):555-63. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11327787 11327787]
+
[[Category: Large Structures]]
-
[[Category: Photobacterium leiognathi]]
+
[[Category: Photobacterium leiognathi subsp. leiognathi]]
-
[[Category: Single protein]]
+
[[Category: Battistoni A]]
-
[[Category: Superoxide dismutase]]
+
[[Category: Bolognesi M]]
-
[[Category: Battistoni, A.]]
+
[[Category: Bordo D]]
-
[[Category: Bolognesi, M.]]
+
[[Category: D'Orazio M]]
-
[[Category: Bordo, D.]]
+
[[Category: Desideri A]]
-
[[Category: Desideri, A.]]
+
[[Category: Milani M]]
-
[[Category: Milani, M.]]
+
[[Category: O'Neill P]]
-
[[Category: Neill, P.O.]]
+
[[Category: Pesce A]]
-
[[Category: Orazio, M.D.]]
+
[[Category: Rosano C]]
-
[[Category: Pesce, A.]]
+
[[Category: Stroppolo ME]]
-
[[Category: Rosano, C.]]
+
-
[[Category: Stroppolo, M.E.]]
+
-
[[Category: CU]]
+
-
[[Category: ZN]]
+
-
[[Category: prokaryotic superoxide dismutase]]
+
-
[[Category: subunit interaction]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 17:14:01 2007''
+

Current revision

X-RAY 3D STRUCTURE OF P.LEIOGNATHI CU,ZN SOD MUTANT W83Y

PDB ID 1ib5

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/1ib5"
Personal tools