This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
3dp5
From Proteopedia
(Difference between revisions)
| (6 intermediate revisions not shown.) | |||
| Line 1: | Line 1: | ||
| - | {{Seed}} | ||
| - | [[Image:3dp5.png|left|200px]] | ||
| - | + | ==Crystal structure of Geobacter sulfurreducens OmcF with N-terminal Strep-tag II== | |
| - | + | <StructureSection load='3dp5' size='340' side='right'caption='[[3dp5]], [[Resolution|resolution]] 1.86Å' scene=''> | |
| - | You may | + | == Structural highlights == |
| - | + | <table><tr><td colspan='2'>[[3dp5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_51573 Atcc 51573]. 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='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='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">GSU2432 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35554 ATCC 51573])</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> | ||
| + | == Evolutionary Conservation == | ||
| + | [[Image:Consurf_key_small.gif|200px|right]] | ||
| + | Check<jmol> | ||
| + | <jmolCheckbox> | ||
| + | <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/initialview01.spt</scriptWhenUnchecked> | ||
| + | <text>to colour the structure by Evolutionary Conservation</text> | ||
| + | </jmolCheckbox> | ||
| + | </jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3dp5 ConSurf]. | ||
| + | <div style="clear:both"></div> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | The 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<ref>PMID:18703839</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | + | </div> | |
| - | + | <div class="pdbe-citations 3dp5" style="background-color:#fffaf0;"></div> | |
| - | + | == References == | |
| - | + | <references/> | |
| - | + | __TOC__ | |
| - | + | </StructureSection> | |
| - | == | + | [[Category: Atcc 51573]] |
| - | + | [[Category: Large Structures]] | |
| - | + | [[Category: Einsle, O]] | |
| - | == | + | [[Category: Hoffmann, M]] |
| - | < | + | [[Category: Lukat, P]] |
| - | [[Category: | + | |
| - | [[Category: Einsle, O | + | |
| - | [[Category: Hoffmann, M | + | |
| - | [[Category: Lukat, P | + | |
[[Category: C-type cytochrome]] | [[Category: C-type cytochrome]] | ||
[[Category: Dissimilatory metal reduction]] | [[Category: Dissimilatory metal reduction]] | ||
| Line 33: | Line 41: | ||
[[Category: Fe sad phasing]] | [[Category: Fe sad phasing]] | ||
[[Category: Geobacter sulfurreducen]] | [[Category: Geobacter sulfurreducen]] | ||
| - | |||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 13:02:53 2009'' | ||
Current revision
Crystal structure of Geobacter sulfurreducens OmcF with N-terminal Strep-tag II
| |||||||||||
