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.


3tek

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:08, 1 March 2024) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
 +
==ThermoDBP: a non-canonical single-stranded DNA binding protein with a novel structure and mechanism==
==ThermoDBP: a non-canonical single-stranded DNA binding protein with a novel structure and mechanism==
-
<StructureSection load='3tek' size='340' side='right' caption='[[3tek]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+
<StructureSection load='3tek' size='340' side='right'caption='[[3tek]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3tek]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermoproteus_tenax Thermoproteus tenax]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TEK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3TEK FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3tek]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoproteus_tenax Thermoproteus tenax]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TEK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TEK FirstGlance]. <br>
-
</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Ttx1576 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2271 Thermoproteus tenax])</td></tr>
+
</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&#8491;</td></tr>
-
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3tek FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tek OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3tek RCSB], [http://www.ebi.ac.uk/pdbsum/3tek PDBsum]</span></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=3tek FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tek OCA], [https://pdbe.org/3tek PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3tek RCSB], [https://www.ebi.ac.uk/pdbsum/3tek PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3tek ProSAT]</span></td></tr>
</table>
</table>
-
<div style="background-color:#fffaf0;">
+
== Function ==
-
== Publication Abstract from PubMed ==
+
[https://www.uniprot.org/uniprot/H0USY6_THETE H0USY6_THETE]
-
ssDNA-binding proteins (SSBs) based on the oligonucleotide-binding fold are considered ubiquitous in nature and play a central role in many DNA transactions including replication, recombination, and repair. We demonstrate that the Thermoproteales, a clade of hyperthermophilic Crenarchaea, lack a canonical SSB. Instead, they encode a distinct ssDNA-binding protein that we term "ThermoDBP," exemplified by the protein Ttx1576 from Thermoproteus tenax. ThermoDBP binds specifically to ssDNA with low sequence specificity. The crystal structure of Ttx1576 reveals a unique fold and a mechanism for ssDNA binding, consisting of an extended cleft lined with hydrophobic phenylalanine residues and flanked by basic amino acids. Two ssDNA-binding domains are linked by a coiled-coil leucine zipper. ThermoDBP appears to have displaced the canonical SSB during the diversification of the Thermoproteales, a highly unusual example of the loss of a "ubiquitous" protein during evolution.
+
-
 
+
-
Displacement of the canonical single-stranded DNA-binding protein in the Thermoproteales.,Paytubi S, McMahon SA, Graham S, Liu H, Botting CH, Makarova KS, Koonin EV, Naismith JH, White MF Proc Natl Acad Sci U S A. 2011 Nov 21. PMID:22106294<ref>PMID:22106294</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
==See Also==
==See Also==
-
*[[Single-stranded DNA-binding protein|Single-stranded DNA-binding protein]]
+
*[[Single-stranded DNA-binding protein 3D structures|Single-stranded DNA-binding protein 3D structures]]
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Thermoproteus tenax]]
[[Category: Thermoproteus tenax]]
-
[[Category: Graham, S]]
+
[[Category: Graham S]]
-
[[Category: Liu, H]]
+
[[Category: Liu H]]
-
[[Category: McMahon, S A]]
+
[[Category: McMahon SA]]
-
[[Category: Naismith, J H]]
+
[[Category: Naismith JH]]
-
[[Category: Paytubi, S]]
+
[[Category: Paytubi S]]
-
[[Category: White, M F]]
+
[[Category: White MF]]
-
[[Category: Dna binding protein]]
+
-
[[Category: Leucine zipper]]
+
-
[[Category: Single stranded dna binding]]
+

Current revision

ThermoDBP: a non-canonical single-stranded DNA binding protein with a novel structure and mechanism

PDB ID 3tek

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/3tek"
Personal tools