3u6y

From Proteopedia

(Difference between revisions)

Revision as of 23:15, 5 August 2016

Crystal structure of ALBA2-DNA complex

Structural highlights

3u6y is a 4 chain structure with sequence from Aerpe. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	2h9u
Gene:	albA2, APE_1823 (AERPE)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[ALBA2_AERPE] Binds double-stranded DNA tightly but without sequence specificity. It is distributed uniformly and abundantly on the chromosome, suggesting a role in chromatin architecture. However, it does not significantly compact DNA. Binds rRNA and mRNA in vivo. May play a role in maintaining the structural and functional stability of RNA, and, perhaps, ribosomes (By similarity).

Publication Abstract from PubMed

DNA binding proteins are essential in all organisms, and they play important roles in both compacting and regulating the genetic material. All thermophilic and hyperthermophilic archaea encode one or more copies of Alba or Sso10b, which is a small, abundant, basic protein that binds DNA. Here, we present the crystal structure of Ape10b2 from Aeropyrum pernix K1 at 1.70 A. Although the overall structure resembles the known Alba protein fold, a significant conformational change was observed in the loop regions. Specifically, the L5 loop is slightly longer, as compared to those of other known proteins, and the flexibility of this loop may facilitate the interaction with double stranded DNA. In addition, we showed that Ape10b2 binds to 16 and 39 bp duplex DNAs with high affinity. On the basis of our analyses, we have created a putative protein-DNA complex model.

Crystal structure of an archaeal specific DNA-binding protein (Ape10b2) from Aeropyrum pernix K1.,Kumarevel T, Sakamoto K, Gopinath SC, Shinkai A, Kumar PK, Yokoyama S Proteins. 2008 May 15;71(3):1156-62. PMID:18004791^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Kumarevel T, Sakamoto K, Gopinath SC, Shinkai A, Kumar PK, Yokoyama S. Crystal structure of an archaeal specific DNA-binding protein (Ape10b2) from Aeropyrum pernix K1. Proteins. 2008 May 15;71(3):1156-62. PMID:18004791 doi:10.1002/prot.21807

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3u6y"

@@ Line 1: / Line 1: @@
 ==Crystal structure of ALBA2-DNA complex==
 <StructureSection load='3u6y' size='340' side='right' caption='[[3u6y]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3u6y]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aeropyrum_pernix Aeropyrum pernix]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3U6Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3U6Y FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3u6y]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Aerpe Aerpe]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3U6Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3U6Y FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2h9u|2h9u]]</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">albA2, APE_1823 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=56636 Aeropyrum pernix])</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">albA2, APE_1823 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272557 AERPE])</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=3u6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3u6y OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3u6y RCSB], [http://www.ebi.ac.uk/pdbsum/3u6y PDBsum]</span></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=3u6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3u6y OCA], [http://pdbe.org/3u6y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3u6y RCSB], [http://www.ebi.ac.uk/pdbsum/3u6y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3u6y ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 18: / Line 19: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3u6y" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Aeropyrum pernix]]
+[[Category: Aerpe]]
 [[Category: Kumarevel, T]]
 [[Category: Structural genomic]]

3u6y

From Proteopedia

Revision as of 23:15, 5 August 2016

Crystal structure of ALBA2-DNA complex

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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