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.
4g9i
From Proteopedia
(Difference between revisions)
| Line 1: | Line 1: | ||
| - | [[ | + | ==Crystal structure of T.kodakarensis HypF== |
| + | <StructureSection load='4g9i' size='340' side='right' caption='[[4g9i]], [[Resolution|resolution]] 4.50Å' scene=''> | ||
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[4g9i]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis_kod1 Thermococcus kodakarensis kod1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4G9I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4G9I FirstGlance]. <br> | ||
| + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | ||
| + | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr> | ||
| + | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">hypF, TK1997 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=69014 Thermococcus kodakarensis KOD1])</td></tr> | ||
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4g9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4g9i OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4g9i RCSB], [http://www.ebi.ac.uk/pdbsum/4g9i PDBsum]</span></td></tr> | ||
| + | </table> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | HypF is involved in the biosynthesis of the CN ligand of the NiFe(CN)(2)CO centre of [NiFe]-hydrogenases. Here, the full-length structure of HypF from Thermococcus kodakarenesis is reported at 4.5 A resolution. The N-terminal acylphosphatase-like (ACP) domain interacts with the zinc-finger domain with some flexibility in its relative position. Molecular-surface analysis shows that a deep pocket formed between the ACP and zinc-finger domains is highly conserved and has positive potential. These results suggest that the positively charged pocket identified is involved in the hydrolysis of carbamoyl phosphate and the formation of a carbamoyl intermediate. | ||
| - | + | Structure of the [NiFe]-hydrogenase maturation protein HypF from Thermococcus kodakarensis KOD1.,Tominaga T, Watanabe S, Matsumi R, Atomi H, Imanaka T, Miki K Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 Oct 1;68(Pt 10):1153-7., doi: 10.1107/S1744309112036421. Epub 2012 Sep 22. PMID:23027738<ref>PMID:23027738</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | + | </div> | |
| - | + | == References == | |
| - | + | <references/> | |
| - | == | + | __TOC__ |
| - | + | </StructureSection> | |
[[Category: Thermococcus kodakarensis kod1]] | [[Category: Thermococcus kodakarensis kod1]] | ||
| - | [[Category: Atomi, H | + | [[Category: Atomi, H]] |
| - | [[Category: Imanaka, T | + | [[Category: Imanaka, T]] |
| - | [[Category: Matsumi, R | + | [[Category: Matsumi, R]] |
| - | [[Category: Miki, K | + | [[Category: Miki, K]] |
| - | [[Category: Tominaga, T | + | [[Category: Tominaga, T]] |
| - | [[Category: Watanabe, S | + | [[Category: Watanabe, S]] |
[[Category: Atp binding]] | [[Category: Atp binding]] | ||
[[Category: Carbamoylation]] | [[Category: Carbamoylation]] | ||
Revision as of 09:23, 10 December 2014
Crystal structure of T.kodakarensis HypF
| |||||||||||
