1g6d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:23, 7 February 2024) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1g6d.gif|left|200px]]
 
-
<!--
+
==STRUCTURE OF PEPTIDYL-D(CGCAATTGCG) IN THE PRESENCE OF ZINC IONS==
-
The line below this paragraph, containing "STRUCTURE_1g6d", creates the "Structure Box" on the page.
+
<StructureSection load='1g6d' size='340' side='right'caption='[[1g6d]], [[Resolution|resolution]] 2.90&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'>[[1g6d]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G6D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1G6D 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]] 2.9&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-
{{STRUCTURE_1g6d| PDB=1g6d | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1g6d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g6d OCA], [https://pdbe.org/1g6d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1g6d RCSB], [https://www.ebi.ac.uk/pdbsum/1g6d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1g6d ProSAT]</span></td></tr>
-
 
+
</table>
-
'''STRUCTURE OF PEPTIDYL-D(CGCAATTGCG) IN THE PRESENCE OF ZINC IONS'''
+
__TOC__
-
 
+
</StructureSection>
-
 
+
[[Category: Large Structures]]
-
==Overview==
+
[[Category: Malinina L]]
-
We have synthesized and crystallized in the presence of Zn(2+) ions the peptidyl-oligonucleotide adduct CH(3)CO-(Arg)(4)-NH-(CH(2))(6)-NH-p-d(CGCAATTGCG). This is the first structure obtained from a deoxyoligonucleotide crystallized in the presence of zinc ions. Zn ions are clearly visible in the 2.9 A resolution map. On the other hand, the peptide tail is not visible in the crystal structure as determined by X-ray diffraction. The terminal bases C1 and G10 are found in extra-helical positions. Their phosphates are ligands of a Zn(2+) ion, located in a special position of the unit cell. This ion plays an important role in the packing arrangement, since it binds four different DNA molecules. Two other Zn(2+) ions are also important for DNA packing. They interact specifically with the N7 atoms of the terminal G2 and G10 bases, but not with the internal G8. This result supports the hypothesis that transition metals do not interact with the bases of duplex DNA in the B form.
+
[[Category: Soler-Lopez M]]
-
 
+
[[Category: Subirana JA]]
-
==About this Structure==
+
[[Category: Tereshko V]]
-
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G6D OCA].
+
[[Category: Zarytova V]]
-
 
+
-
==Reference==
+
-
Interaction of zinc ions with d(CGCAATTGCG) in a 2.9 A resolution X-ray structure., Soler-Lopez M, Malinina L, Tereshko V, Zarytova V, Subirana JA, J Biol Inorg Chem. 2002 Apr;7(4-5):533-8. Epub 2002 Feb 7. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11941511 11941511]
+
-
[[Category: Malinina, L.]]
+
-
[[Category: Soler-Lopez, M.]]
+
-
[[Category: Subirana, J A.]]
+
-
[[Category: Tereshko, V.]]
+
-
[[Category: Zarytova, V.]]
+
-
[[Category: Dna]]
+
-
[[Category: Peptidyl-dna complex]]
+
-
[[Category: X-ray structure]]
+
-
[[Category: Zn ion]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 17:11:43 2008''
+

Current revision

STRUCTURE OF PEPTIDYL-D(CGCAATTGCG) IN THE PRESENCE OF ZINC IONS

PDB ID 1g6d

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/1g6d"
Personal tools