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.

5nkq

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

Crystal structure of a dual topology fluoride ion channel.

Structural highlights

5nkq is a 8 chain structure with sequence from Bordetella pertussis and Homo sapiens. This structure supersedes the now removed PDB entries 5fxb and 5a41. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.17Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CRCB_BORPE Important for reducing fluoride concentration in the cell, thus reducing its toxicity.

Publication Abstract from PubMed

To contend with hazards posed by environmental fluoride, microorganisms export this anion through F(-)-specific ion channels of the Fluc family. Since the recent discovery of Fluc channels, numerous idiosyncratic features of these proteins have been unearthed, including strong selectivity for F(-) over Cl(-) and dual-topology dimeric assembly. To understand the chemical basis for F(-) permeation and how the antiparallel subunits convene to form a F(-)-selective pore, here we solve the crystal structures of two bacterial Fluc homologues in complex with three different monobody inhibitors, with and without F(-) present, to a maximum resolution of 2.1 A. The structures reveal a surprising 'double-barrelled' channel architecture in which two F(-) ion pathways span the membrane, and the dual-topology arrangement includes a centrally coordinated cation, most likely Na(+). F(-) selectivity is proposed to arise from the very narrow pores and an unusual anion coordination that exploits the quadrupolar edges of conserved phenylalanine rings.

Crystal structures of a double-barrelled fluoride ion channel.,Stockbridge RB, Kolmakova-Partensky L, Shane T, Koide A, Koide S, Miller C, Newstead S Nature. 2015 Sep 24;525(7570):548-51. doi: 10.1038/nature14981. Epub 2015 Sep 7. PMID:26344196^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Stockbridge RB, Kolmakova-Partensky L, Shane T, Koide A, Koide S, Miller C, Newstead S. Crystal structures of a double-barrelled fluoride ion channel. Nature. 2015 Sep 24;525(7570):548-51. doi: 10.1038/nature14981. Epub 2015 Sep 7. PMID:26344196 doi:http://dx.doi.org/10.1038/nature14981

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5nkq"

@@ Line 1: / Line 1: @@
 ==Crystal structure of a dual topology fluoride ion channel.==
-<StructureSection load='5nkq' size='340' side='right' caption='[[5nkq]], [[Resolution|resolution]] 2.17&Aring;' scene=''>
+<StructureSection load='5nkq' size='340' side='right'caption='[[5nkq]], [[Resolution|resolution]] 2.17&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5nkq]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_tussis-convulsivae"_lehmann_and_neumann_1927 "bacterium tussis-convulsivae" lehmann and neumann 1927] and [http://en.wikipedia.org/wiki/Human Human]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5fxb 5fxb] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5a41 5a41]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NKQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NKQ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5nkq]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Bordetella_pertussis Bordetella pertussis] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5fxb 5fxb] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5a41 5a41]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NKQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NKQ FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=F:FLUORIDE+ION'>F</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 2.17&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5fxb|5fxb]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=F:FLUORIDE+ION'>F</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">crcB, BP1217 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=520 "Bacterium tussis-convulsivae" Lehmann and Neumann 1927])</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=5nkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nkq OCA], [https://pdbe.org/5nkq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5nkq RCSB], [https://www.ebi.ac.uk/pdbsum/5nkq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5nkq 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=5nkq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nkq OCA], [http://pdbe.org/5nkq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nkq RCSB], [http://www.ebi.ac.uk/pdbsum/5nkq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nkq ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/CRCB_BORPE CRCB_BORPE]] Important for reducing fluoride concentration in the cell, thus reducing its toxicity.
+[https://www.uniprot.org/uniprot/CRCB_BORPE CRCB_BORPE] Important for reducing fluoride concentration in the cell, thus reducing its toxicity.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 24: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Bacterium tussis-convulsivae lehmann and neumann 1927]]
+[[Category: Bordetella pertussis]]
-[[Category: Human]]
+[[Category: Homo sapiens]]
-[[Category: Miller, C]]
+[[Category: Large Structures]]
-[[Category: Newstead, S]]
+[[Category: Miller C]]
-[[Category: Stockbridge, R]]
+[[Category: Newstead S]]
-[[Category: Dual topology channel]]
+[[Category: Stockbridge R]]
-[[Category: Fluoride channel]]
-[[Category: Monobody]]
-[[Category: Transport protein]]

5nkq

From Proteopedia

Current revision

Crystal structure of a dual topology fluoride ion channel.

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox