6bg8

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Current revision (14:22, 13 March 2024) (edit) (undo)
 
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<StructureSection load='6bg8' size='340' side='right'caption='[[6bg8]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
<StructureSection load='6bg8' size='340' side='right'caption='[[6bg8]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[6bg8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Shefn Shefn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BG8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BG8 FirstGlance]. <br>
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<table><tr><td colspan='2'>[[6bg8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Shewanella_frigidimarina_NCIMB_400 Shewanella frigidimarina NCIMB 400]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BG8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6BG8 FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5971295&#8491;</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Sfri_1018 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=318167 SHEFN])</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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<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=6bg8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bg8 OCA], [http://pdbe.org/6bg8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6bg8 RCSB], [http://www.ebi.ac.uk/pdbsum/6bg8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6bg8 ProSAT]</span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6bg8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bg8 OCA], [https://pdbe.org/6bg8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6bg8 RCSB], [https://www.ebi.ac.uk/pdbsum/6bg8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6bg8 ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/IBP1_SHEFN IBP1_SHEFN] Ice-binding adhesion protein that adsorbs this bacterium onto ice to maintain a favorable position in its aquatic habitat. Inhibits growth of the ice crystals. Has high thermal hysteresis (TH) activity, which is the ability to lower the freezing point of an aqueous solution below its melting point. The TH activity of this protein is approximately 1.4 degrees Celsius at 25 uM and little below 2 degrees Celsius at 80 uM.<ref>PMID:29498209</ref>
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Out of the dozen different ice-binding protein (IBP) structures known, the DUF3494 domain is the most widespread, having been passed many times between prokaryotic and eukaryotic microorganisms by horizontal gene transfer. This ~25-kDa beta-solenoid domain with an adjacent parallel alpha-helix is most commonly associated with an N-terminal secretory signal peptide. However, examples of the DUF3494 domain preceded by tandem Bacterial Immunoglobulin-like (BIg) domains are sometimes found, though uncharacterized. Here we present one such protein (SfIBP_1) from the Antarctic bacterium Shewanella frigidimarina. We have confirmed and characterized the ice-binding activity of its ice-binding domain using thermal hysteresis measurements, fluorescent ice plane affinity analysis, and ice recrystallization inhibition assays. X-ray crystallography was used to solve the structure of the SfIBP_1 ice-binding domain, to further characterize its ice-binding surface and unique method of stabilizing or "capping" the ends of the solenoid structure. The latter is formed from the interaction of two loops mediated by a combination of tandem prolines and electrostatic interactions. Furthermore, given their domain architecture and membrane association, we propose that these BIg-containing DUF3494 IBPs serve as ice-binding adhesion proteins that are capable of adsorbing their host bacterium onto ice. This article is protected by copyright. All rights reserved.
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An ice-binding and tandem beta-sandwich domain-containing protein in Shewanella frigidimarina is a potential new type of ice adhesin.,Vance TDR, Graham LA, Davies PL FEBS J. 2018 Mar 2. doi: 10.1111/febs.14424. PMID:29498209<ref>PMID:29498209</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 6bg8" style="background-color:#fffaf0;"></div>
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== References ==
== References ==
<references/>
<references/>
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</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Shefn]]
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[[Category: Shewanella frigidimarina NCIMB 400]]
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[[Category: Davies, P L]]
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[[Category: Davies PL]]
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[[Category: Vance, T D.R]]
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[[Category: Vance TDR]]
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[[Category: Antifreeze protein]]
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[[Category: C-terminal domain]]
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[[Category: Duf3494 domain]]
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[[Category: Ice adhesin]]
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Current revision

Shewanella frigidimarina ice-binding protein_1 DUF3494 Domain

PDB ID 6bg8

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