2oxv

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:50, 30 August 2023) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:2oxv.png|left|200px]]
 
-
<!--
+
==Structure of the A138T promiscuous mutant of the EcoRI restriction endonuclease bound to its cognate recognition site.==
-
The line below this paragraph, containing "STRUCTURE_2oxv", creates the "Structure Box" on the page.
+
<StructureSection load='2oxv' size='340' side='right'caption='[[2oxv]], [[Resolution|resolution]] 1.95&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'>[[2oxv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OXV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OXV 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]] 1.95&#8491;</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=2oxv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oxv OCA], [https://pdbe.org/2oxv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oxv RCSB], [https://www.ebi.ac.uk/pdbsum/2oxv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oxv ProSAT]</span></td></tr>
-
{{STRUCTURE_2oxv| PDB=2oxv | SCENE= }}
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/T2E1_ECOLX T2E1_ECOLX] Recognizes the double-stranded sequence GAATTC and cleaves after G-1.
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Promiscuous mutant EcoRI endonucleases bind to the canonical site GAATTC more tightly than does the wild-type endonuclease, yet cleave variant (EcoRI(*)) sites more rapidly than does wild-type. The crystal structure of the A138T promiscuous mutant homodimer in complex with a GAATTC site is nearly identical to that of the wild-type complex, except that the Thr138 side chains make packing interactions with bases in the 5'-flanking regions outside the recognition hexanucleotide while excluding two bound water molecules seen in the wild-type complex. Molecular dynamics simulations confirm exclusion of these waters. The structure and simulations suggest possible reasons why binding of the A138T protein to the GAATTC site has DeltaS degrees more favorable and DeltaH degrees less favorable than for wild-type endonuclease binding. The interactions of Thr138 with flanking bases may permit A138T, unlike wild-type enzyme, to form complexes with EcoRI(*) sites that structurally resemble the specific wild-type complex with GAATTC.
-
===Structure of the A138T promiscuous mutant of the EcoRI restriction endonuclease bound to its cognate recognition site.===
+
Structural and thermodynamic basis for enhanced DNA binding by a promiscuous mutant EcoRI endonuclease.,Sapienza PJ, Rosenberg JM, Jen-Jacobson L Structure. 2007 Nov;15(11):1368-82. PMID:17997963<ref>PMID:17997963</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 2oxv" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_17997963}}, adds the Publication Abstract to the page
+
*[[Endonuclease 3D structures|Endonuclease 3D structures]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 17997963 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_17997963}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
-
2OXV is a [[Protein complex]] structure of sequences 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=2OXV OCA].
+
-
 
+
-
==Reference==
+
-
Structural and thermodynamic basis for enhanced DNA binding by a promiscuous mutant EcoRI endonuclease., Sapienza PJ, Rosenberg JM, Jen-Jacobson L, Structure. 2007 Nov;15(11):1368-82. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17997963 17997963]
+
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
-
[[Category: Protein complex]]
+
[[Category: Large Structures]]
-
[[Category: Type II site-specific deoxyribonuclease]]
+
[[Category: Jen-Jacobson L]]
-
[[Category: Jen-Jacobson, L.]]
+
[[Category: Rosenberg JM]]
-
[[Category: Rosenberg, J M.]]
+
[[Category: Sapienza PJ]]
-
[[Category: Sapienza, P J.]]
+
-
[[Category: Ecori]]
+
-
[[Category: Hydrolase/dna complex]]
+
-
[[Category: Promiscuous mutant]]
+
-
[[Category: Protein-dna interaction]]
+
-
[[Category: Relaxed specificity mutant]]
+
-
[[Category: Type ii restriction endonuclease]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 19:02:26 2008''
+

Current revision

Structure of the A138T promiscuous mutant of the EcoRI restriction endonuclease bound to its cognate recognition site.

PDB ID 2oxv

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/2oxv"
Personal tools