3il2: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
 
(8 intermediate revisions by the same user not shown)
Line 1: Line 1:
{{Seed}}
[[Image:3il2.png|left|200px]]


<!--
==Crystal structure of a Rex-family repressor R90D mutant/DNA complex from Thermus aquaticus==
The line below this paragraph, containing "STRUCTURE_3il2", creates the "Structure Box" on the page.
<StructureSection load='3il2' size='340' side='right'caption='[[3il2]], [[Resolution|resolution]] 2.49&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'>[[3il2]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB27 Thermus thermophilus HB27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IL2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IL2 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]] 2.49&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
{{STRUCTURE_3il2|  PDB=3il2  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3il2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3il2 OCA], [https://pdbe.org/3il2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3il2 RCSB], [https://www.ebi.ac.uk/pdbsum/3il2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3il2 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/REX_THET2 REX_THET2] Modulates transcription in response to changes in cellular NADH/NAD(+) redox state (By similarity).
== 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/il/3il2_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3il2 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Nicotinamide adenine dinucleotides have emerged as key signals of the cellular redox state. Yet the structural basis for allosteric gene regulation by the ratio of reduced NADH to oxidized NAD(+) is poorly understood. A key sensor among Gram-positive bacteria, Rex represses alternative respiratory gene expression until a limited oxygen supply elevates the intracellular NADH:NAD(+) ratio. Here we investigate the molecular mechanism for NADH/NAD(+) sensing among Rex family members by determining structures of Thermus aquaticus Rex bound to (1) NAD(+), (2) DNA operator, and (3) without ligand. Comparison with the Rex/NADH complex reveals that NADH releases Rex from the DNA site following a 40 degrees closure between the dimeric subunits. Complementary site-directed mutagenesis experiments implicate highly conserved residues in NAD-responsive DNA-binding activity. These rare views of a redox sensor in action establish a means for slight differences in the nicotinamide charge, pucker, and orientation to signal the redox state of the cell.


===Crystal structure of a Rex-family repressor R90D mutant/DNA complex from Thermus aquaticus===
Structural basis for NADH/NAD+ redox sensing by a Rex family repressor.,McLaughlin KJ, Strain-Damerell CM, Xie K, Brekasis D, Soares AS, Paget MS, Kielkopf CL Mol Cell. 2010 May 28;38(4):563-75. PMID:20513431<ref>PMID:20513431</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_20513431}}, adds the Publication Abstract to the page
<div class="pdbe-citations 3il2" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 20513431 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_20513431}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
3IL2 is a 4 chains structure with sequences from [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb27 Thermus thermophilus hb27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IL2 OCA].
[[Category: Thermus thermophilus HB27]]
 
[[Category: Kielkopf CL]]
==Reference==
[[Category: McLaughlin KJ]]
<ref group="xtra">PMID:20513431</ref><references group="xtra"/>
[[Category: Thermus thermophilus hb27]]
[[Category: Kielkopf, C L.]]
[[Category: McLaughlin, K J.]]
[[Category: Cytoplasm]]
[[Category: Dna binding protein]]
[[Category: Dna binding protein-dna complex]]
[[Category: Dna-binding]]
[[Category: Mutant]]
[[Category: Nad]]
[[Category: Nicotinamide adenine dinucleotide]]
[[Category: Redox-sensing]]
[[Category: Repressor]]
[[Category: Rex]]
[[Category: Rossmann fold]]
[[Category: Thermus aquaticus]]
[[Category: Transcription]]
[[Category: Transcription regulation]]
[[Category: Winged helix]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 16 08:21:14 2010''

Latest revision as of 09:17, 30 October 2024

Crystal structure of a Rex-family repressor R90D mutant/DNA complex from Thermus aquaticus

3il2, resolution 2.49Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "https://proteopedia.org/index.php?title=3il2&oldid=4248630"