3dp5: Difference between revisions
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<StructureSection load='3dp5' size='340' side='right'caption='[[3dp5]], [[Resolution|resolution]] 1.86Å' scene=''> | <StructureSection load='3dp5' size='340' side='right'caption='[[3dp5]], [[Resolution|resolution]] 1.86Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3dp5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/ | <table><tr><td colspan='2'>[[3dp5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacter_sulfurreducens Geobacter sulfurreducens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DP5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DP5 FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.86Å</td></tr> | ||
<tr id=' | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3dp5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp5 OCA], [https://pdbe.org/3dp5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dp5 RCSB], [https://www.ebi.ac.uk/pdbsum/3dp5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dp5 ProSAT]</span></td></tr> | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3dp5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dp5 OCA], [https://pdbe.org/3dp5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dp5 RCSB], [https://www.ebi.ac.uk/pdbsum/3dp5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dp5 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/Q74AE4_GEOSL Q74AE4_GEOSL] | |||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
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<jmolCheckbox> | <jmolCheckbox> | ||
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dp/3dp5_consurf.spt"</scriptWhenChecked> | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dp/3dp5_consurf.spt"</scriptWhenChecked> | ||
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/ | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked> | ||
<text>to colour the structure by Evolutionary Conservation</text> | <text>to colour the structure by Evolutionary Conservation</text> | ||
</jmolCheckbox> | </jmolCheckbox> | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Geobacter sulfurreducens]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Einsle | [[Category: Einsle O]] | ||
[[Category: Hoffmann | [[Category: Hoffmann M]] | ||
[[Category: Lukat | [[Category: Lukat P]] | ||
Latest revision as of 12:00, 30 October 2024
Crystal structure of Geobacter sulfurreducens OmcF with N-terminal Strep-tag IICrystal structure of Geobacter sulfurreducens OmcF with N-terminal Strep-tag II
Structural highlights
FunctionEvolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMedThe putative outer membrane c-type cytochrome OmcF from Geobacter sulfurreducens contains a single haem group and shows homology to soluble cytochromes c(6), a class of electron-transfer proteins that are typically found in cyanobacterial photosynthetic electron-transfer chains. OmcF was overexpressed heterologously in Escherichia coli as an N-terminal Strep-tag II fusion protein and isolated using streptactin-affinity chromatography followed by size-exclusion chromatography. The structure was solved by Fe SAD using data collected to a resolution of 1.86 A on a rotating copper-anode X-ray generator. In the crystal, packing interactions in one dimension were exclusively mediated through the Strep-tag II sequence. The tag and linker regions were in contact with three further monomers of OmcF, leading to a well defined electron-density map for this engineered and secondary-structure-free region of the molecule. Crystal packing of the c(6)-type cytochrome OmcF from Geobacter sulfurreducens is mediated by an N-terminal Strep-tag II.,Lukat P, Hoffmann M, Einsle O Acta Crystallogr D Biol Crystallogr. 2008 Sep;64(Pt 9):919-26. Epub 2008, Aug 13. PMID:18703839[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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