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.


6bmg

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (14:45, 4 October 2023) (edit) (undo)
 
Line 3: Line 3:
<StructureSection load='6bmg' size='340' side='right'caption='[[6bmg]], [[Resolution|resolution]] 1.88&Aring;' scene=''>
<StructureSection load='6bmg' size='340' side='right'caption='[[6bmg]], [[Resolution|resolution]] 1.88&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[6bmg]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Dwarf_sperm_whale Dwarf sperm whale]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BMG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BMG FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[6bmg]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Kogia_sima Kogia sima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BMG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6BMG FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</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]] 1.88&#8491;</td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9752 Dwarf sperm whale])</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></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=6bmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bmg OCA], [http://pdbe.org/6bmg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6bmg RCSB], [http://www.ebi.ac.uk/pdbsum/6bmg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6bmg 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=6bmg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bmg OCA], [https://pdbe.org/6bmg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6bmg RCSB], [https://www.ebi.ac.uk/pdbsum/6bmg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6bmg ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/MYG_KOGSI MYG_KOGSI]] Serves as a reserve supply of oxygen and facilitates the movement of oxygen within muscles.
+
[https://www.uniprot.org/uniprot/MYG_KOGSI MYG_KOGSI] Serves as a reserve supply of oxygen and facilitates the movement of oxygen within muscles.
-
<div style="background-color:#fffaf0;">
+
-
== Publication Abstract from PubMed ==
+
-
Expression levels in animal muscle tissues and in Escherichia coli vary widely for naturally occurring mammalian myoglobins (Mb). To explore this variation, we developed an in vitro transcription and wheat germ extract-based translation assay to examine quantitatively the factors that govern expression of holoMb. We constructed a library of naturally occurring Mbs from two terrestrial and four deep-diving aquatic mammals and three distal histidine mutants designed to enhance apoglobin stability but decrease hemin affinity. A strong linear correlation is observed between cell-free expression levels of holo-metMb variants and their corresponding apoglobin stabilities, which were measured independently by guanidine HCl-induced unfolding titrations using purified proteins. In contrast, there is little dependence of expression on hemin affinity. Our results confirm quantitatively that deep diving mammals have highly stable Mbs that express to higher levels in animal myocytes, E. coli, and the wheat germ cell-free system than Mbs from terrestrial mammals. Our theoretical analyses show that the rate of aggregation of unfolded apoMb is very large, and as a result, the key factor for high level expression of holoMb, and presumably other heme proteins, is an ultra high fraction of folded, native apoglobin that is capable of rapidly binding hemin. This fraction is determined by the overall equilibrium folding constant and not hemin affinity. These results also demonstrate that the cell-free transcription/translation system can be used as a high throughput platform to screen for apoglobin stability without the need to generate large amounts of protein for in vitro unfolding measurements.
+
-
 
+
-
Apoglobin Stability Is the Major Factor Governing both Cell-free and in Vivo Expression of Holomyoglobin.,Samuel PP, Smith LP, Phillips GN Jr, Olson JS J Biol Chem. 2015 Sep 25;290(39):23479-95. doi: 10.1074/jbc.M115.672204. Epub, 2015 Jul 23. PMID:26205820<ref>PMID:26205820</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 6bmg" style="background-color:#fffaf0;"></div>
+
==See Also==
==See Also==
*[[Myoglobin 3D structures|Myoglobin 3D structures]]
*[[Myoglobin 3D structures|Myoglobin 3D structures]]
-
== References ==
 
-
<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Dwarf sperm whale]]
+
[[Category: Kogia sima]]
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Alvarado, S]]
+
[[Category: Alvarado S]]
-
[[Category: Miller, M D]]
+
[[Category: Miller MD]]
-
[[Category: Olson, J S]]
+
[[Category: Olson JS]]
-
[[Category: Phillips, G N]]
+
[[Category: Phillips Jr GN]]
-
[[Category: Samuel, P P]]
+
[[Category: Samuel PP]]
-
[[Category: Xu, W]]
+
[[Category: Xu W]]
-
[[Category: Globin]]
+
-
[[Category: Myoglobin]]
+
-
[[Category: Oxygen storage]]
+
-
[[Category: Oxygen storage-transport complex]]
+

Current revision

Structure of Recombinant Dwarf Sperm Whale Myoglobin (Oxy)

PDB ID 6bmg

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6bmg"
Personal tools