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.


4ggt

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (15:46, 14 March 2024) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Structure of apo Bradavidin2 (Form B)==
==Structure of apo Bradavidin2 (Form B)==
-
<StructureSection load='4ggt' size='340' side='right' caption='[[4ggt]], [[Resolution|resolution]] 1.69&Aring;' scene=''>
+
<StructureSection load='4ggt' size='340' side='right'caption='[[4ggt]], [[Resolution|resolution]] 1.69&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[4ggt]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bradyrhizobium_japonicum_usda_110 Bradyrhizobium japonicum usda 110]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GGT FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[4ggt]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bradyrhizobium_diazoefficiens_USDA_110 Bradyrhizobium diazoefficiens USDA 110]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GGT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4GGT FirstGlance]. <br>
-
</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2y32|2y32]], [[4ggr|4ggr]], [[4ggz|4ggz]]</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]] 1.693&#8491;</td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">bll1558 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224911 Bradyrhizobium japonicum USDA 110])</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=4ggt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ggt OCA], [https://pdbe.org/4ggt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ggt RCSB], [https://www.ebi.ac.uk/pdbsum/4ggt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ggt ProSAT]</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=4ggt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ggt OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ggt RCSB], [http://www.ebi.ac.uk/pdbsum/4ggt PDBsum]</span></td></tr>
+
</table>
</table>
-
<div style="background-color:#fffaf0;">
+
== Function ==
-
== Publication Abstract from PubMed ==
+
[https://www.uniprot.org/uniprot/Q89U61_BRADU Q89U61_BRADU]
-
Bradavidin II is a biotin-binding protein from Bradyrhizobium japonicum that resembles chicken avidin and bacterial streptavidin. A biophysical characterization was carried out using dynamic light scattering, native mass spectrometry, differential scanning calorimetry, and isothermal titration calorimetry combined with structural characterization using X-ray crystallography. These observations revealed that bradavidin II differs from canonical homotetrameric avidin protein family members in its quaternary structure. In contrast with the other avidins, bradavidin II appears to have a dynamic (transient) oligomeric state in solution. It is monomeric at low protein concentrations but forms higher oligomeric assemblies at higher concentrations. The crystal structure of bradavidin II revealed an important role for Phe42 in shielding the bound ligand from surrounding water molecules, thus functionally replacing the L7,8 loop essential for tight ligand binding in avidin and streptavidin. This bradavidin II characterization opens new avenues for oligomerization-independent biotin-binding protein development.
+
-
 
+
-
The highly dynamic oligomeric structure of bradavidin II is unique among avidin proteins.,Leppiniemi J, Meir A, Kahkonen N, Kukkurainen S, Maatta JA, Ojanen M, Janis J, S Kulomaa M, Livnah O, Hytonen VP Protein Sci. 2013 May 10. doi: 10.1002/pro.2281. PMID:23661323<ref>PMID:23661323</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
==See Also==
==See Also==
-
*[[Avidin|Avidin]]
+
*[[Avidin 3D structures|Avidin 3D structures]]
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Bradyrhizobium japonicum usda 110]]
+
[[Category: Bradyrhizobium diazoefficiens USDA 110]]
-
[[Category: Livnah, O]]
+
[[Category: Large Structures]]
-
[[Category: Meir, A]]
+
[[Category: Livnah O]]
-
[[Category: Avidin]]
+
[[Category: Meir A]]
-
[[Category: Beta barrel]]
+
-
[[Category: Biotin binding protein]]
+
-
[[Category: Bradavidin]]
+
-
[[Category: High affinity system]]
+
-
[[Category: Lipocalin fold]]
+
-
[[Category: Oligomeric state]]
+
-
[[Category: Streptavidin]]
+

Current revision

Structure of apo Bradavidin2 (Form B)

PDB ID 4ggt

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/4ggt"
Personal tools