1c8c: Difference between revisions

From Proteopedia
Jump to navigationJump to search
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
New page: left|200px<br /><applet load="1c8c" size="450" color="white" frame="true" align="right" spinBox="true" caption="1c8c, resolution 1.45Å" /> '''CRYSTAL STRUCTURES O...
 
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
 
(16 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1c8c.gif|left|200px]]<br /><applet load="1c8c" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1c8c, resolution 1.45&Aring;" />
'''CRYSTAL STRUCTURES OF THE CHROMOSOMAL PROTEINS SSO7D/SAC7D BOUND TO DNA CONTAINING T-G MISMATCHED BASE PAIRS'''<br />


==Overview==
==CRYSTAL STRUCTURES OF THE CHROMOSOMAL PROTEINS SSO7D/SAC7D BOUND TO DNA CONTAINING T-G MISMATCHED BASE PAIRS==
Sso7d and Sac7d are two small chromatin proteins from the, hyperthermophilic archaeabacterium Sulfolobus solfataricus and Sulfolobus, acidocaldarius, respectively. The crystal structures of Sso7d-GTGATCGC, Sac7d-GTGATCGC and Sac7d-GTGATCAC have been determined and refined at 1.45, A, 2.2 A and 2.2 A, respectively, to investigate the DNA binding property, of Sso7d/Sac7d in the presence of a T-G mismatch base-pair. Detailed, structural analysis revealed that the intercalation site includes the T-G, mismatch base-pair and Sso7d/Sac7d bind to that mismatch base-pair in a, manner similar to regular DNA. In the Sso7d-GTGATCGC complex, a new, inter-strand hydrogen bond between T2O4 and C14N4 is formed and well-order, bridging water molecules are found. The results suggest that the less, stable DNA stacking site involving a T-G mismatch may be a preferred site, for protein side-chain intercalation.
<StructureSection load='1c8c' size='340' side='right'caption='[[1c8c]], [[Resolution|resolution]] 1.45&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1c8c]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharolobus_solfataricus Saccharolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1C8C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1C8C FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.45&#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=1c8c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1c8c OCA], [https://pdbe.org/1c8c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1c8c RCSB], [https://www.ebi.ac.uk/pdbsum/1c8c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1c8c ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/DN7D_SACS2 DN7D_SACS2] Can constrain negative DNA supercoils. May be involved in maintaining the integrity of the genome at high temperature (By similarity). Stimulates the Holliday junction cleavage activity of Hjc (PubMed:11709558).[UniProtKB:P61990]<ref>PMID:11709558</ref>
== 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/c8/1c8c_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1c8c ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Sso7d and Sac7d are two small chromatin proteins from the hyperthermophilic archaeabacterium Sulfolobus solfataricus and Sulfolobus acidocaldarius, respectively. The crystal structures of Sso7d-GTGATCGC, Sac7d-GTGATCGC and Sac7d-GTGATCAC have been determined and refined at 1.45 A, 2.2 A and 2.2 A, respectively, to investigate the DNA binding property of Sso7d/Sac7d in the presence of a T-G mismatch base-pair. Detailed structural analysis revealed that the intercalation site includes the T-G mismatch base-pair and Sso7d/Sac7d bind to that mismatch base-pair in a manner similar to regular DNA. In the Sso7d-GTGATCGC complex, a new inter-strand hydrogen bond between T2O4 and C14N4 is formed and well-order bridging water molecules are found. The results suggest that the less stable DNA stacking site involving a T-G mismatch may be a preferred site for protein side-chain intercalation.


==About this Structure==
Crystal structures of the chromosomal proteins Sso7d/Sac7d bound to DNA containing T-G mismatched base-pairs.,Su S, Gao YG, Robinson H, Liaw YC, Edmondson SP, Shriver JW, Wang AH J Mol Biol. 2000 Oct 27;303(3):395-403. PMID:11031116<ref>PMID:11031116</ref>
1C8C is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1C8C OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Crystal structures of the chromosomal proteins Sso7d/Sac7d bound to DNA containing T-G mismatched base-pairs., Su S, Gao YG, Robinson H, Liaw YC, Edmondson SP, Shriver JW, Wang AH, J Mol Biol. 2000 Oct 27;303(3):395-403. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11031116 11031116]
</div>
[[Category: Single protein]]
<div class="pdbe-citations 1c8c" style="background-color:#fffaf0;"></div>
[[Category: Sulfolobus solfataricus]]
== References ==
[[Category: Edmondson, S.P.]]
<references/>
[[Category: Gao, Y.G.]]
__TOC__
[[Category: Liaw, Y.C.]]
</StructureSection>
[[Category: Robinson, H.]]
[[Category: Large Structures]]
[[Category: Shriver, J.W.]]
[[Category: Saccharolobus solfataricus]]
[[Category: Su, S.]]
[[Category: Edmondson SP]]
[[Category: Wang, A.H.J.]]
[[Category: Gao Y-G]]
[[Category: achaeabacteria]]
[[Category: Liaw Y-C]]
[[Category: dna binding protein]]
[[Category: Robinson H]]
[[Category: electrostatics]]
[[Category: Shriver JW]]
[[Category: hyperthermophile]]
[[Category: Su S]]
[[Category: molecular modeling]]
[[Category: Wang AH-J]]
[[Category: protein stability]]
[[Category: protein-dna interaction]]
[[Category: t-g mismatch]]
[[Category: x-ray crystallography]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 12:15:09 2007''

Latest revision as of 05:49, 9 August 2023

CRYSTAL STRUCTURES OF THE CHROMOSOMAL PROTEINS SSO7D/SAC7D BOUND TO DNA CONTAINING T-G MISMATCHED BASE PAIRS

1c8c, resolution 1.45Å

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=1c8c&oldid=3820668"