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.


1mj0

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1mj0" size="450" color="white" frame="true" align="right" spinBox="true" caption="1mj0, resolution 2.031&Aring;" /> '''SANK E3_5: an artif...)
Current revision (08:37, 10 April 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1mj0.gif|left|200px]]<br /><applet load="1mj0" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1mj0, resolution 2.031&Aring;" />
 
-
'''SANK E3_5: an artificial Ankyrin repeat protein'''<br />
 
-
==Overview==
+
==SANK E3_5: an artificial Ankyrin repeat protein==
-
Ankyrin repeat (AR) proteins mediate innumerable protein-protein, interactions in virtually all phyla. This finding suggested the use of AR, proteins as designed binding molecules. Based on sequence and structural, analyses, we designed a consensus AR with fixed framework and randomized, interacting residues. We generated several combinatorial libraries of AR, proteins consisting of defined numbers of this repeat. Randomly chosen, library members are expressed in soluble form in the cytoplasm of, Escherichia coli constituting up to 30% of total cellular protein and show, high thermodynamic stability. We determined the crystal structure of one, of those library members to 2.0-A resolution, providing insight into the, consensus AR fold. Besides the highly complementary hydrophobic, repeat-repeat interfaces and the absence of structural irregularities in, the consensus AR protein, the regular and extended hydrogen bond networks, in the beta-turn and loop regions are noteworthy. Furthermore, all, residues found in the turn region of the Ramachandran plot are glycines., Many of these features also occur in natural AR proteins, but not in this, rigorous and standardized fashion. We conclude that the AR domain fold is, an intrinsically very stable and well-expressed scaffold, able to display, randomized interacting residues. This scaffold represents an excellent, basis for the design of novel binding molecules.
+
<StructureSection load='1mj0' size='340' side='right'caption='[[1mj0]], [[Resolution|resolution]] 2.03&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[1mj0]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Designed_synthetic_gene Designed synthetic gene]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MJ0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MJ0 FirstGlance]. <br>
-
1MJ0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Designed_synthetic_gene Designed synthetic gene] with SO4 and TRS as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1MJ0 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]] 2.031&#8491;</td></tr>
-
 
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=1mj0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mj0 OCA], [https://pdbe.org/1mj0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mj0 RCSB], [https://www.ebi.ac.uk/pdbsum/1mj0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mj0 ProSAT]</span></td></tr>
-
Designed to be stable: crystal structure of a consensus ankyrin repeat protein., Kohl A, Binz HK, Forrer P, Stumpp MT, Pluckthun A, Grutter MG, Proc Natl Acad Sci U S A. 2003 Feb 18;100(4):1700-5. Epub 2003 Feb 3. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12566564 12566564]
+
</table>
 +
== 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/mj/1mj0_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=1mj0 ConSurf].
 +
<div style="clear:both"></div>
 +
__TOC__
 +
</StructureSection>
[[Category: Designed synthetic gene]]
[[Category: Designed synthetic gene]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Binz, H.K.]]
+
[[Category: Binz HK]]
-
[[Category: Forrer, P.]]
+
[[Category: Forrer P]]
-
[[Category: Gruetter, M.G.]]
+
[[Category: Gruetter MG]]
-
[[Category: Kohl, A.]]
+
[[Category: Kohl A]]
-
[[Category: Plueckthun, A.]]
+
[[Category: Plueckthun A]]
-
[[Category: Stumpp, M.T.]]
+
[[Category: Stumpp MT]]
-
[[Category: SO4]]
+
-
[[Category: TRS]]
+
-
[[Category: ankyrin repeat]]
+
-
[[Category: consensus]]
+
-
[[Category: protein engineering]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 04:15:12 2007''
+

Current revision

SANK E3_5: an artificial Ankyrin repeat protein

PDB ID 1mj0

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/1mj0"
Personal tools