1pfe: Difference between revisions

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New page: left|200px<br /><applet load="1pfe" size="450" color="white" frame="true" align="right" spinBox="true" caption="1pfe, resolution 1.10Å" /> '''Echinomycin-(gcgtacg...
 
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[[Image:1pfe.gif|left|200px]]<br /><applet load="1pfe" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1pfe, resolution 1.10&Aring;" />
'''Echinomycin-(gcgtacgc)2 complex'''<br />


==Overview==
==Echinomycin-(gcgtacgc)2 complex==
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.
<StructureSection load='1pfe' size='340' side='right'caption='[[1pfe]], [[Resolution|resolution]] 1.10&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1pfe]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_echinatus Streptomyces echinatus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PFE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PFE FirstGlance]. <br>
1PFE is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with CL, QUI, DSN, ALA, NCY, MVA and SER as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1PFE OCA].  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.1&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=DSN:D-SERINE'>DSN</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></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1pfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pfe OCA], [https://pdbe.org/1pfe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pfe RCSB], [https://www.ebi.ac.uk/pdbsum/1pfe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pfe ProSAT]</span></td></tr>
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://ispc.weizmann.ac.il//pmbin/getpm?pmid=15805599 15805599]
</table>
[[Category: Protein complex]]
__TOC__
[[Category: Cuesta-Seijo, J.A.]]
</StructureSection>
[[Category: ALA]]
[[Category: Large Structures]]
[[Category: CL]]
[[Category: Streptomyces echinatus]]
[[Category: DSN]]
[[Category: Cuesta-Seijo JA]]
[[Category: MVA]]
[[Category: NCY]]
[[Category: QUI]]
[[Category: SER]]
[[Category: bisintercalator]]
[[Category: duplex dna]]
[[Category: echinomycin]]
[[Category: hoogsteen base pairing]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:25:38 2007''

Latest revision as of 09:10, 3 April 2024

Echinomycin-(gcgtacgc)2 complexEchinomycin-(gcgtacgc)2 complex

Structural highlights

1pfe is a 2 chain structure with sequence from Streptomyces echinatus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.1Å
Ligands:, , , , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

1pfe, resolution 1.10Å

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