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.


2jub

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:42, 9 May 2024) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:2jub.png|left|200px]]
 
-
<!--
+
==Solution structure of IPI*==
-
The line below this paragraph, containing "STRUCTURE_2jub", creates the "Structure Box" on the page.
+
<StructureSection load='2jub' size='340' side='right'caption='[[2jub]]' 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'>[[2jub]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JUB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JUB 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">Solution NMR</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=2jub FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jub OCA], [https://pdbe.org/2jub PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jub RCSB], [https://www.ebi.ac.uk/pdbsum/2jub PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jub ProSAT]</span></td></tr>
-
{{STRUCTURE_2jub| PDB=2jub | SCENE= }}
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/IPI1_BPT4 IPI1_BPT4] Internal protein I is one of four proteins in a complex that functions in bacteriophage head maturation.
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Phage T4 protects its DNA from the two-gene-encoded gmrS/gmrD (glucose-modified hydroxymethylcytosine restriction endonuclease) CT of pathogenic Escherichia coli, CT596, by injecting several hundred copies of the 76-amino-acid-residue nuclease inhibitor, IPI*, into the infected host. Here, the three-dimensional solution structure of mature IPI* is reported as determined by nuclear magnetic resonance techniques using 1290 experimental nuclear Overhauser effect and dipolar coupling constraints ( approximately 17 constraints per residue). Close examination of this oblate-shaped protein structure reveals a novel fold consisting of two small beta-sheets (beta1: B1 and B2; beta2: B3-B5) flanked at the N- and C-termini by alpha-helices (H1 and H2). Such a fold is very compact in shape and allows ejection of IPI* through the narrow 30-A portal and tail tube apertures of the virion without unfolding. Structural and dynamic measurements identify an exposed hydrophobic knob that is a putative gmrS/gmrD-binding site. A single gene from the uropathogenic E. coli UT189, which codes for a gmrS/gmrD-like UT fusion enzyme (with approximately 90% identity to the heterodimeric CT enzyme), has evolved IPI* inhibitor immunity. Analysis of the gmrS/gmrD restriction endonuclease enzyme family and its IPI* family phage antagonists reveals an evolutionary pathway that has elaborated a surprisingly diverse and specifically fitted set of coevolving attack and defense structures.
-
===Solution structure of IPI*===
+
Restriction endonuclease inhibitor IPI* of bacteriophage T4: a novel structure for a dedicated target.,Rifat D, Wright NT, Varney KM, Weber DJ, Black LW J Mol Biol. 2008 Jan 18;375(3):720-34. Epub 2007 Nov 1. PMID:18037438<ref>PMID:18037438</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_18037438}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 2jub" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 18037438 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_18037438}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Escherichia virus T4]]
-
2JUB is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JUB OCA].
+
[[Category: Large Structures]]
-
 
+
[[Category: Black LW]]
-
==Reference==
+
[[Category: Rifat D]]
-
Restriction endonuclease inhibitor IPI* of bacteriophage T4: a novel structure for a dedicated target., Rifat D, Wright NT, Varney KM, Weber DJ, Black LW, J Mol Biol. 2008 Jan 18;375(3):720-34. Epub 2007 Nov 1. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18037438 18037438]
+
[[Category: Varney KM]]
-
[[Category: Enterobacteria phage t4]]
+
[[Category: Weber DJ]]
-
[[Category: Single protein]]
+
[[Category: Wright NT]]
-
[[Category: Black, L W.]]
+
-
[[Category: Rifat, D.]]
+
-
[[Category: Varney, K M.]]
+
-
[[Category: Weber, D J.]]
+
-
[[Category: Wright, N T.]]
+
-
[[Category: Endonuclease inhibitor]]
+
-
[[Category: Ipi*]]
+
-
[[Category: Solution]]
+
-
[[Category: T4 phage]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 08:19:38 2008''
+

Current revision

Solution structure of IPI*

PDB ID 2jub

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/2jub"
Personal tools