5oga: Difference between revisions

Line 1:

~~'''Unreleased structure'''~~

~~The entry~~ 5oga is ~~ON HOLD~~

==Structure of minimal i-motif domain==

== Structural highlights ==

<table><tr><td colspan='2'>[[5oga]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OGA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OGA FirstGlance]. <br>

</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=THM:THYMIDINE'>THM</scene></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=5oga FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oga OCA], [http://pdbe.org/5oga PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5oga RCSB], [http://www.ebi.ac.uk/pdbsum/5oga PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5oga ProSAT]</span></td></tr>

</table>

== Publication Abstract from PubMed ==

We report here the solution structure of several repetitive DNA sequences containing d(TCGTTCCGT) and related repeats. At physiological pH, these sequences fold into i-motif like quadruplexes in which every two repeats a globular structure is stabilized by two hemiprotonated C:C(+) base pairs, flanked by two minor groove tetrads resulting from the association of G:C or G:T base pairs. The interaction between the minor groove tetrads and the nearby C:C(+) base pairs affords a strong stabilization, which results in effective pHT values above 7.5. Longer sequences with more than two repeats are able to fold in tandem, forming a rosary bead-like structure. Bioinformatics analysis shows that these sequences are prevalent in the human genome, and are present in development-related genes.

~~Authors~~:

Prevalent Sequences in the Human Genome Can Form Mini i-Motif Structures at Physiological pH.,Mir B, Serrano I, Buitrago D, Orozco M, Escaja N, Gonzalez C J Am Chem Soc. 2017 Oct 11;139(40):13985-13988. doi: 10.1021/jacs.7b07383. Epub, 2017 Sep 27. PMID:28933543<ref>PMID:28933543</ref>

~~Description~~:

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

[[Category: ~~Unreleased Structures~~]]

</div>

== References ==

__TOC__

</StructureSection>

[[Category: Buitrago, D]]

[[Category: Escaja, N]]

[[Category: Gonzalez, C]]

[[Category: Mir, B]]

[[Category: Orozco, M]]

[[Category: Serrano, I]]

[[Category: Dna]]

[[Category: Dna non-canonical structure]]

[[Category: I-motif]]

[[Category: Minor groove tetrad]]

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5oga is ON HOLD
+==Structure of minimal i-motif domain==
+<StructureSection load='5oga' size='340' side='right' caption='[[5oga]], [[NMR_Ensembles_of_Models | 10 NMR models]]' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5oga]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OGA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OGA FirstGlance]. <br>
+</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DNR:2-DEOXY-N3-PROTONATED+CYTIDINE-5-MONOPHOSPHATE'>DNR</scene>, <scene name='pdbligand=THM:THYMIDINE'>THM</scene></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=5oga FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oga OCA], [http://pdbe.org/5oga PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5oga RCSB], [http://www.ebi.ac.uk/pdbsum/5oga PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5oga ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+We report here the solution structure of several repetitive DNA sequences containing d(TCGTTCCGT) and related repeats. At physiological pH, these sequences fold into i-motif like quadruplexes in which every two repeats a globular structure is stabilized by two hemiprotonated C:C(+) base pairs, flanked by two minor groove tetrads resulting from the association of G:C or G:T base pairs. The interaction between the minor groove tetrads and the nearby C:C(+) base pairs affords a strong stabilization, which results in effective pHT values above 7.5. Longer sequences with more than two repeats are able to fold in tandem, forming a rosary bead-like structure. Bioinformatics analysis shows that these sequences are prevalent in the human genome, and are present in development-related genes.
-Authors:
+Prevalent Sequences in the Human Genome Can Form Mini i-Motif Structures at Physiological pH.,Mir B, Serrano I, Buitrago D, Orozco M, Escaja N, Gonzalez C J Am Chem Soc. 2017 Oct 11;139(40):13985-13988. doi: 10.1021/jacs.7b07383. Epub, 2017 Sep 27. PMID:28933543<ref>PMID:28933543</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
+<div class="pdbe-citations 5oga" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Buitrago, D]]
+[[Category: Escaja, N]]
+[[Category: Gonzalez, C]]
+[[Category: Mir, B]]
+[[Category: Orozco, M]]
+[[Category: Serrano, I]]
+[[Category: Dna]]
+[[Category: Dna non-canonical structure]]
+[[Category: I-motif]]
+[[Category: Minor groove tetrad]]