1xvr: Difference between revisions

Revision as of 15:34, 3 May 2008

echinomycin (CGTACG)2 complex

OverviewOverview

The structure of the bis-intercalation complex of the depsipeptide antibiotic echinomycin with (CGTACG)2 has been redetermined at a higher resolution (1.4 A) and new high-resolution structures (1.1-1.5 A) are reported for the complexes of echinomycin with (GCGTACGC)2 (at both low and high ionic strengths) and (ACGTACGT)2. The structures show the expected Hoogsteen pairing for the base pairs flanking the intercalating chromophores on the outside and Watson-Crick pairing for both base pairs enclosed by the echinomycin. In the octamer complexes but not the hexamer complex, the echinomycin molecule, which would possess a molecular twofold axis were it not for the thioacetal bridge, shows twofold disorder. In all the structures the stacking of the base pairs and chromophores is extended by intermolecular stacking. The structures provide more precise details of the hydrogen bonding and other interactions between the bis-intercalating antibiotics and the duplex DNA than were previously available.

About this StructureAbout this Structure

Full crystallographic information is available from OCA.

ReferenceReference

Structures of complexes between echinomycin and duplex DNA., Cuesta-Seijo JA, Sheldrick GM, Acta Crystallogr D Biol Crystallogr. 2005 Apr;61(Pt 4):442-8. Epub 2005, Mar 24. PMID:15805599 Page seeded by OCA on Sat May 3 15:34:02 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
 [[Image:1xvr.gif|left|200px]]
- {{Structure
+<!--
-|PDB= 1xvr |SIZE=350|CAPTION= <scene name='initialview01'>1xvr</scene>, resolution 1.40&Aring;
+The line below this paragraph, containing "STRUCTURE_1xvr", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DSN:D-SERINE'>DSN</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MVA:N-METHYLVALINE'>MVA</scene>, <scene name='pdbligand=N2C:N,S-DIMETHYLCYSTEINE'>N2C</scene>, <scene name='pdbligand=NCY:N-METHYLCYSTEINE'>NCY</scene>, <scene name='pdbligand=QUI:2-CARBOXYQUINOXALINE'>QUI</scene>, <scene name='pdbligand=SER:SERINE'>SER</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY=
+or leave the SCENE parameter empty for the default display.
-|GENE=
+-->
-|DOMAIN=
+{{STRUCTURE_1xvr|  PDB=1xvr  |  SCENE=  }}
-|RELATEDENTRY=[[1pfe|1PFE]], [[1xvk|1XVK]], [[1xvn|1XVN]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1xvr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xvr OCA], [http://www.ebi.ac.uk/pdbsum/1xvr PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1xvr RCSB]</span>
-}}
 '''echinomycin (CGTACG)2 complex'''
@@ Line 19: / Line 16: @@
 ==About this Structure==
-XVR is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XVR OCA].
+Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XVR OCA].
 ==Reference==
 Structures of complexes between echinomycin and duplex DNA., Cuesta-Seijo JA, Sheldrick GM, Acta Crystallogr D Biol Crystallogr. 2005 Apr;61(Pt 4):442-8. Epub 2005, Mar 24. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15805599 15805599]
-[[Category: Protein complex]]
 [[Category: Cuesta-Seijo, J A.]]
 [[Category: Sheldrick, G M.]]
-[[Category: bisintercalator]]
+[[Category: Bisintercalator]]
-[[Category: hoogsteen basepair]]
+[[Category: Hoogsteen basepair]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 15:34:02 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 00:55:22 2008''