3zy7: Difference between revisions

Line 1:

[[~~Image~~:~~3zy7~~.~~png~~|~~left~~|~~200px~~]]

==Crystal structure of computationally redesigned gamma-adaptin appendage domain forming a symmetric homodimer==

== Structural highlights ==

<table><tr><td colspan='2'>[[3zy7]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZY7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ZY7 FirstGlance]. <br>

</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene><br>

<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3zy7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zy7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3zy7 RCSB], [http://www.ebi.ac.uk/pdbsum/3zy7 PDBsum]</span></td></tr>

<table>

== Publication Abstract from PubMed ==

Computational design of novel protein-protein interfaces is a test of our understanding of protein interactions and has the potential to allow modification of cellular physiology. Methods for designing high-affinity interactions that adopt a predetermined binding mode have proved elusive, suggesting the need for new strategies that simplify the design process. A solvent-exposed backbone on a beta-strand is thought of as "sticky" and beta-strand pairing stabilizes many naturally occurring protein complexes. Here, we computationally redesign a monomeric protein to form a symmetric homodimer by pairing exposed beta-strands to form an intermolecular beta-sheet. A crystal structure of the designed complex closely matches the computational model (rmsd = 1.0 A). This work demonstrates that beta-strand pairing can be used to computationally design new interactions with high accuracy.

<!--

Computational design of a symmetric homodimer using beta-strand assembly.,Stranges PB, Machius M, Miley MJ, Tripathy A, Kuhlman B Proc Natl Acad Sci U S A. 2011 Dec 20;108(51):20562-7. Epub 2011 Dec 5. PMID:22143762<ref>PMID:22143762</ref>

~~The line below this paragraph~~, ~~containing "STRUCTURE_3zy7"~~, ~~creates the "Structure Box" on the page~~.

~~You may change the PDB parameter~~ (~~which sets the PDB file loaded into the applet~~)

~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~

~~or leave the SCENE parameter empty for the default display~~.

-->

~~{{STRUCTURE_3zy7| PDB=3zy7 | SCENE= }}~~

~~===Crystal structure~~ of ~~computationally redesigned gamma-adaptin appendage domain forming a symmetric homodimer===~~

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

</div>

==See Also==

~~<!--~~

*[[Adaptin|Adaptin]]

~~The line below this paragraph, {{ABSTRACT_PUBMED_22143762}}, adds the Publication Abstract to the page~~

== References ==

~~(as it appears on PubMed at http://www.pubmed.gov), where 22143762 is the PubMed ID number.~~

~~-->~~

__TOC__

~~{{ABSTRACT_PUBMED_22143762}}~~

</StructureSection>

==~~About this Structure~~==

[[~~3zy7]~~] ~~is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus~~]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZY7 OCA].~~

==~~Reference~~==

<~~ref group="xtra">PMID:022143762<~~/~~ref~~><~~references group="xtra"~~/>

[[Category: Mus musculus]]

[[Category: Kuhlman, B.]]

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools

@@ Line 1: / Line 1: @@
-[[Image:3zy7.png|left|200px]]
+==Crystal structure of computationally redesigned gamma-adaptin appendage domain forming a symmetric homodimer==
+<StructureSection load='3zy7' size='340' side='right' caption='[[3zy7]], [[Resolution|resolution]] 1.09&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[3zy7]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZY7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ZY7 FirstGlance]. <br>
+</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene><br>
+<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2a7b|2a7b]], [[1gyu|1gyu]], [[1gyw|1gyw]], [[1w63|1w63]], [[1gyv|1gyv]]</td></tr>
+<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3zy7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zy7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3zy7 RCSB], [http://www.ebi.ac.uk/pdbsum/3zy7 PDBsum]</span></td></tr>
+<table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Computational design of novel protein-protein interfaces is a test of our understanding of protein interactions and has the potential to allow modification of cellular physiology. Methods for designing high-affinity interactions that adopt a predetermined binding mode have proved elusive, suggesting the need for new strategies that simplify the design process. A solvent-exposed backbone on a beta-strand is thought of as "sticky" and beta-strand pairing stabilizes many naturally occurring protein complexes. Here, we computationally redesign a monomeric protein to form a symmetric homodimer by pairing exposed beta-strands to form an intermolecular beta-sheet. A crystal structure of the designed complex closely matches the computational model (rmsd = 1.0 A). This work demonstrates that beta-strand pairing can be used to computationally design new interactions with high accuracy.
-<!--
+Computational design of a symmetric homodimer using beta-strand assembly.,Stranges PB, Machius M, Miley MJ, Tripathy A, Kuhlman B Proc Natl Acad Sci U S A. 2011 Dec 20;108(51):20562-7. Epub 2011 Dec 5. PMID:22143762<ref>PMID:22143762</ref>
-The line below this paragraph, containing "STRUCTURE_3zy7", creates the "Structure Box" on the page.
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-or leave the SCENE parameter empty for the default display.
--->
-{{STRUCTURE_3zy7|  PDB=3zy7  |  SCENE=  }}
-===Crystal structure of computationally redesigned gamma-adaptin appendage domain forming a symmetric homodimer===
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+==See Also==
-<!--
+*[[Adaptin|Adaptin]]
-The line below this paragraph, {{ABSTRACT_PUBMED_22143762}}, adds the Publication Abstract to the page
+== References ==
-(as it appears on PubMed at http://www.pubmed.gov), where 22143762 is the PubMed ID number.
+<references/>
--->
+__TOC__
-{{ABSTRACT_PUBMED_22143762}}
+</StructureSection>
-==About this Structure==
-[[3zy7]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZY7 OCA].
-==Reference==
-<ref group="xtra">PMID:022143762</ref><references group="xtra"/>
 [[Category: Mus musculus]]
 [[Category: Kuhlman, B.]]