3rdm: Difference between revisions

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<StructureSection load='3rdm' size='340' side='right'caption='[[3rdm]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
<StructureSection load='3rdm' size='340' side='right'caption='[[3rdm]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3rdm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/As_4.1583 As 4.1583]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RDM FirstGlance]. <br>
<table><tr><td colspan='2'>[[3rdm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_avidinii Streptomyces avidinii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RDM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RDM FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=BTN:BIOTIN'>BTN</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]] 1.6&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3rdo|3rdo]], [[3rdq|3rdq]], [[3rds|3rds]], [[3rdu|3rdu]], [[3rdx|3rdx]], [[3re5|3re5]], [[3re6|3re6]]</div></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=BTN:BIOTIN'>BTN</scene></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=3rdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdm OCA], [https://pdbe.org/3rdm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rdm RCSB], [https://www.ebi.ac.uk/pdbsum/3rdm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rdm 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=3rdm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rdm OCA], [https://pdbe.org/3rdm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rdm RCSB], [https://www.ebi.ac.uk/pdbsum/3rdm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rdm ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[https://www.uniprot.org/uniprot/SAV_STRAV SAV_STRAV]] The biological function of streptavidin is not known. Forms a strong non-covalent specific complex with biotin (one molecule of biotin per subunit of streptavidin).  
[https://www.uniprot.org/uniprot/SAV_STRAV SAV_STRAV] The biological function of streptavidin is not known. Forms a strong non-covalent specific complex with biotin (one molecule of biotin per subunit of streptavidin).
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
We have performed a detailed analysis of streptavidin variants with altered specificity towards desthiobiotin. In addition to changes in key residues which widen the ligand binding pocket and accommodate the more structurally flexible desthiobiotin, the data revealed the role of a key, non-active site mutation at the base of the flexible loop (S52G) which slows dissociation of this ligand by approximately sevenfold. Our data suggest that this mutation results in the loss of a stabilizing contact which keeps this loop open and accessible in the absence of ligand. When this mutation was introduced into the wild-type protein, destabilization of the opened loop conferred a approximately 10-fold decrease in both the on-rate and off-rate for the ligand biotin-4-fluoroscein. A similar effect was observed when this mutation was added to a monomeric form of this protein. Our results provide key insight into the role of the streptavidin flexible loop in ligand binding and maintaining high affinity interactions.
 
Evolved streptavidin mutants reveal key role of loop residue in high-affinity binding.,Magalhaes ML, Czekster CM, Guan R, Malashkevich VN, Almo SC, Levy M Protein Sci. 2011 Jul;20(7):1145-54. doi: 10.1002/pro.642. Epub 2011 May, 12. PMID:21520321<ref>PMID:21520321</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3rdm" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Avidin 3D structures|Avidin 3D structures]]
*[[Avidin 3D structures|Avidin 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: As 4 1583]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Almo, S C]]
[[Category: Streptomyces avidinii]]
[[Category: Czecster, C M]]
[[Category: Almo SC]]
[[Category: Guan, R]]
[[Category: Czecster CM]]
[[Category: Levy, M]]
[[Category: Guan R]]
[[Category: Magalhaes, M]]
[[Category: Levy M]]
[[Category: Malashkevich, V N]]
[[Category: Magalhaes M]]
[[Category: Biotin binding protein]]
[[Category: Malashkevich VN]]
[[Category: Improved desthiobiotin binding]]
[[Category: Opened loop destabilization]]
[[Category: Streptavidin variant]]

Latest revision as of 15:19, 14 March 2024

Crystal structure of R7-2 streptavidin complexed with biotin/PEGCrystal structure of R7-2 streptavidin complexed with biotin/PEG

Structural highlights

3rdm is a 1 chain structure with sequence from Streptomyces avidinii. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.6Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SAV_STRAV The biological function of streptavidin is not known. Forms a strong non-covalent specific complex with biotin (one molecule of biotin per subunit of streptavidin).

See Also

3rdm, resolution 1.60Å

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