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| <StructureSection load='5ekb' size='340' side='right'caption='[[5ekb]], [[Resolution|resolution]] 2.07Å' scene=''> | | <StructureSection load='5ekb' size='340' side='right'caption='[[5ekb]], [[Resolution|resolution]] 2.07Å' scene=''> |
| == Structural highlights == | | == Structural highlights == |
- | <table><tr><td colspan='2'>[[5ekb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Geoka Geoka]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EKB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EKB FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5ekb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_kaustophilus_HTA426 Geobacillus kaustophilus HTA426]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EKB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5EKB FirstGlance]. <br> |
- | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN3:MANGANESE+(III)+ION'>MN3</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.074Å</td></tr> |
- | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4hr0|4hr0]], [[4hr4|4hr4]], [[4hr5|4hr5]], [[4xbv|4xbv]], [[4xbw|4xbw]], [[4xb9|4xb9]], [[5dco|5dco]], [[5dcr|5dcr]], [[5dcs|5dcs]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN3:MANGANESE+(III)+ION'>MN3</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr> |
- | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">GK2771 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=235909 GEOKA])</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=5ekb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ekb OCA], [https://pdbe.org/5ekb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ekb RCSB], [https://www.ebi.ac.uk/pdbsum/5ekb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ekb ProSAT]</span></td></tr> |
- | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonucleoside-diphosphate_reductase Ribonucleoside-diphosphate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.17.4.1 1.17.4.1] </span></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=5ekb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ekb OCA], [http://pdbe.org/5ekb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ekb RCSB], [http://www.ebi.ac.uk/pdbsum/5ekb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ekb ProSAT]</span></td></tr> | + | |
| </table> | | </table> |
| + | == Function == |
| + | [https://www.uniprot.org/uniprot/Q5KW80_GEOKA Q5KW80_GEOKA] |
| <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| </div> | | </div> |
| <div class="pdbe-citations 5ekb" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 5ekb" style="background-color:#fffaf0;"></div> |
| + | |
| + | ==See Also== |
| + | *[[Ribonucleotide reductase 3D structures|Ribonucleotide reductase 3D structures]] |
| == References == | | == References == |
| <references/> | | <references/> |
| __TOC__ | | __TOC__ |
| </StructureSection> | | </StructureSection> |
- | [[Category: Geoka]] | + | [[Category: Geobacillus kaustophilus HTA426]] |
| [[Category: Large Structures]] | | [[Category: Large Structures]] |
- | [[Category: Ribonucleoside-diphosphate reductase]]
| + | [[Category: Griese JJ]] |
- | [[Category: Griese, J J]] | + | [[Category: Hogbom M]] |
- | [[Category: Hogbom, M]] | + | |
- | [[Category: Diiron cofactor]]
| + | |
- | [[Category: Metalloprotein oxidoreductase]]
| + | |
- | [[Category: Oxidoreductase]]
| + | |
- | [[Category: R2-like ligand-binding oxidase]]
| + | |
- | [[Category: Ribonucleotide reductase r2 subunit fold]]
| + | |
| Structural highlights
Function
Q5KW80_GEOKA
Publication Abstract from PubMed
A manganese/iron cofactor which performs multi-electron oxidative chemistry is found in two classes of ferritin-like proteins, the small subunit (R2) of class Ic ribonucleotide reductase (R2c) and the R2-like ligand-binding oxidase (R2lox). It is unclear how a heterodimeric Mn/Fe metallocofactor is assembled in these two related proteins as opposed to a homodimeric Fe/Fe cofactor, especially considering the structural similarity and proximity of the two metal-binding sites in both protein scaffolds and the similar first coordination sphere ligand preferences of MnII and FeII. Using EPR and Mossbauer spectroscopies as well as X-ray anomalous dispersion, we examined metal loading and cofactor activation of both proteins in vitro (in solution). We find divergent cofactor assembly mechanisms for the two systems. In both cases, excess MnII promotes heterobimetallic cofactor assembly. In the absence of FeII, R2c cooperatively binds MnII at both metal sites, whereas R2lox does not readily bind MnII at either site. Heterometallic cofactor assembly is favored at substoichiometric FeII concentrations in R2lox. FeII and MnII likely bind to the protein in a stepwise fashion, with FeII binding to site 2 initiating cofactor assembly. In R2c, however, heterometallic assembly is presumably achieved by the displacement of MnII by FeII at site 2. The divergent metal loading mechanisms are correlated with the putative in vivo functions of R2c and R2lox, and most likely with the intracellular MnII/FeII concentrations in the host organisms from which they were isolated.
Divergent assembly mechanisms of the manganese/iron cofactors in R2lox and R2c proteins.,Kutin Y, Srinivas V, Fritz M, Kositzki R, Shafaat HS, Birrell J, Bill E, Haumann M, Lubitz W, Hogbom M, Griese JJ, Cox N J Inorg Biochem. 2016 Apr 16. pii: S0162-0134(16)30104-0. doi:, 10.1016/j.jinorgbio.2016.04.019. PMID:27138102[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Kutin Y, Srinivas V, Fritz M, Kositzki R, Shafaat HS, Birrell J, Bill E, Haumann M, Lubitz W, Hogbom M, Griese JJ, Cox N. Divergent assembly mechanisms of the manganese/iron cofactors in R2lox and R2c proteins. J Inorg Biochem. 2016 Apr 16. pii: S0162-0134(16)30104-0. doi:, 10.1016/j.jinorgbio.2016.04.019. PMID:27138102 doi:http://dx.doi.org/10.1016/j.jinorgbio.2016.04.019
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