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.


2k4t

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (19:10, 29 May 2024) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:2k4t.jpg|left|200px]]
 
-
<!--
+
==Solution structure of human VDAC-1 in LDAO micelles==
-
The line below this paragraph, containing "STRUCTURE_2k4t", creates the "Structure Box" on the page.
+
<StructureSection load='2k4t' size='340' side='right'caption='[[2k4t]]' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[2k4t]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K4T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2K4T FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=2k4t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2k4t OCA], [https://pdbe.org/2k4t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2k4t RCSB], [https://www.ebi.ac.uk/pdbsum/2k4t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2k4t ProSAT]</span></td></tr>
-
{{STRUCTURE_2k4t| PDB=2k4t | SCENE= }}
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/VDAC1_HUMAN VDAC1_HUMAN] Forms a channel through the mitochondrial outer membrane and also the plasma membrane. The channel at the outer mitochondrial membrane allows diffusion of small hydrophilic molecules; in the plasma membrane it is involved in cell volume regulation and apoptosis. It adopts an open conformation at low or zero membrane potential and a closed conformation at potentials above 30-40 mV. The open state has a weak anion selectivity whereas the closed state is cation-selective. May participate in the formation of the permeability transition pore complex (PTPC) responsible for the release of mitochondrial products that triggers apoptosis.<ref>PMID:11845315</ref> <ref>PMID:15033708</ref> <ref>PMID:18755977</ref>
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k4/2k4t_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2k4t ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The voltage-dependent anion channel (VDAC) mediates trafficking of small molecules and ions across the eukaryotic outer mitochondrial membrane. VDAC also interacts with antiapoptotic proteins from the Bcl-2 family, and this interaction inhibits release of apoptogenic proteins from the mitochondrion. We present the nuclear magnetic resonance (NMR) solution structure of recombinant human VDAC-1 reconstituted in detergent micelles. It forms a 19-stranded beta barrel with the first and last strand parallel. The hydrophobic outside perimeter of the barrel is covered by detergent molecules in a beltlike fashion. In the presence of cholesterol, recombinant VDAC-1 can form voltage-gated channels in phospholipid bilayers similar to those of the native protein. NMR measurements revealed the binding sites of VDAC-1 for the Bcl-2 protein Bcl-x(L), for reduced beta-nicotinamide adenine dinucleotide, and for cholesterol. Bcl-x(L) interacts with the VDAC barrel laterally at strands 17 and 18.
-
===Solution structure of human VDAC-1 in LDAO micelles===
+
Solution structure of the integral human membrane protein VDAC-1 in detergent micelles.,Hiller S, Garces RG, Malia TJ, Orekhov VY, Colombini M, Wagner G Science. 2008 Aug 29;321(5893):1206-10. PMID:18755977<ref>PMID:18755977</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 2k4t" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_18755977}}, adds the Publication Abstract to the page
+
*[[Ion channels 3D structures|Ion channels 3D structures]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 18755977 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_18755977}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
-
2K4T is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2K4T OCA].
+
-
 
+
-
==Reference==
+
-
Solution structure of the integral human membrane protein VDAC-1 in detergent micelles., Hiller S, Garces RG, Malia TJ, Orekhov VY, Colombini M, Wagner G, Science. 2008 Aug 29;321(5893):1206-10. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18755977 18755977]
+
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Colombini, M.]]
+
[[Category: Colombini M]]
-
[[Category: Garces, R G.]]
+
[[Category: Garces RG]]
-
[[Category: Hiller, S.]]
+
[[Category: Hiller S]]
-
[[Category: Malia, T J.]]
+
[[Category: Malia TJ]]
-
[[Category: Orekhov, V Y.]]
+
[[Category: Orekhov VY]]
-
[[Category: Wagner, G.]]
+
[[Category: Wagner G]]
-
[[Category: Acetylation]]
+
-
[[Category: Apoptosis]]
+
-
[[Category: Host-virus interaction]]
+
-
[[Category: Ion transport]]
+
-
[[Category: Membrane]]
+
-
[[Category: Membrane protein]]
+
-
[[Category: Mitochondrion]]
+
-
[[Category: Outer membrane]]
+
-
[[Category: Phosphoprotein]]
+
-
[[Category: Porin]]
+
-
[[Category: Transmembrane]]
+
-
[[Category: Transport protein]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 10 10:43:35 2008''
+

Current revision

Solution structure of human VDAC-1 in LDAO micelles

PDB ID 2k4t

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/2k4t"
Personal tools