1mdg: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
 
(11 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1mdg.gif|left|200px]]


<!--
==An Alternating Antiparallel Octaplex in an RNA Crystal Structure==
The line below this paragraph, containing "STRUCTURE_1mdg", creates the "Structure Box" on the page.
<StructureSection load='1mdg' size='340' side='right'caption='[[1mdg]], [[Resolution|resolution]] 1.50&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'>[[1mdg]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MDG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MDG 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]] 1.5&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGM:8-BROMO-2-DEOXYGUANOSINE-5-MONOPHOSPHATE'>BGM</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
{{STRUCTURE_1mdg|  PDB=1mdg  |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1mdg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mdg OCA], [https://pdbe.org/1mdg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mdg RCSB], [https://www.ebi.ac.uk/pdbsum/1mdg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mdg ProSAT]</span></td></tr>
 
</table>
'''An Alternating Antiparallel Octaplex in an RNA Crystal Structure'''
<div style="background-color:#fffaf0;">
 
== Publication Abstract from PubMed ==
 
==Overview==
Multistranded helical structures in nucleic acids play various functions in biological processes. Here we report the crystal structure of a hexamer, rU(BrdG)r(AGGU),at 1.5 A resolution containing a structural complex of an alternating antiparallel eight-stranded helical fragment that is sandwiched in two tetraplexes. The octaplex is formed by groove binding interaction and base tetrad intercalation between two tetraplexes. Two different forms of octaplexes have been proposed, which display different properties in interaction with proteins and nucleic acids. Adenines form a base tetrad in the novel N6-H em leader N3 conformation and further interact with uridines to form an adenine-uridine octad in the reverse Hoogsteen pairing scheme. The conformational flexibility of adenine tetrad indicates that it can optimize its conformation in different interactions.
Multistranded helical structures in nucleic acids play various functions in biological processes. Here we report the crystal structure of a hexamer, rU(BrdG)r(AGGU),at 1.5 A resolution containing a structural complex of an alternating antiparallel eight-stranded helical fragment that is sandwiched in two tetraplexes. The octaplex is formed by groove binding interaction and base tetrad intercalation between two tetraplexes. Two different forms of octaplexes have been proposed, which display different properties in interaction with proteins and nucleic acids. Adenines form a base tetrad in the novel N6-H em leader N3 conformation and further interact with uridines to form an adenine-uridine octad in the reverse Hoogsteen pairing scheme. The conformational flexibility of adenine tetrad indicates that it can optimize its conformation in different interactions.


==About this Structure==
An eight-stranded helical fragment in RNA crystal structure: implications for tetraplex interaction.,Pan B, Xiong Y, Shi K, Sundaralingam M Structure. 2003 Jul;11(7):825-31. PMID:12842045<ref>PMID:12842045</ref>
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MDG OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
An eight-stranded helical fragment in RNA crystal structure: implications for tetraplex interaction., Pan B, Xiong Y, Shi K, Sundaralingam M, Structure. 2003 Jul;11(7):825-31. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12842045 12842045]
</div>
[[Category: Pan, B C.]]
<div class="pdbe-citations 1mdg" style="background-color:#fffaf0;"></div>
[[Category: Shi, K.]]
== References ==
[[Category: Sundaralingam, M.]]
<references/>
[[Category: Xiong, Y.]]
__TOC__
[[Category: Base octad]]
</StructureSection>
[[Category: Base tetrad]]
[[Category: Large Structures]]
[[Category: Rna]]
[[Category: Pan BC]]
[[Category: Tetraplex]]
[[Category: Shi K]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 00:54:44 2008''
[[Category: Sundaralingam M]]
[[Category: Xiong Y]]

Latest revision as of 06:37, 13 August 2026

An Alternating Antiparallel Octaplex in an RNA Crystal Structure

1mdg, resolution 1.50Å

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=1mdg&oldid=4476192"