Proteopedia

Urea transporter: Difference between revisions

← Older edit
Jaime Prilusky (talk | contribs)
ConfirmAccount, Editor, Journal, Mutation, Next, Print3D, Tester, any2jmol, Bureaucrats, Administrators
7,873 edits
No edit summary
Michal Harel (talk | contribs)
31,761 edits
No edit summary
 
(17 intermediate revisions by 3 users not shown)
Line 1: Line 1:
[[Image:3k3f.png|left|200px]]
<StructureSection load='' size='350' side='right' caption='Urea transporter ([[3me1]]' scene='Urea_transporter/3k3fdefault/1' pspeed='8'>


<!--
===Crystal Structure of the Urea Transporter from Desulfovibrio Vulgaris===
The line below this paragraph, containing "STRUCTURE_3k3f", creates the "Structure Box" on the page.
You may change the PDB parameter (which sets the PDB file loaded into the applet)
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
or leave the SCENE parameter empty for the default display.
-->


===Crystal Structure of the Urea Transporter from Desulfovibrio Vulgaris===
<!--
The line below this paragraph, {{ABSTRACT_PUBMED_19865084}}, adds the Publication Abstract to the page
(as it appears on PubMed at http://www.pubmed.gov), where 19865084 is the PubMed ID number.
-->
{{ABSTRACT_PUBMED_19865084}}
{{ABSTRACT_PUBMED_19865084}}


==About this Structure==
==About this Structure==
{{Structure
|PDB= 3k3f  |SIZE=400|SCENE=Urea_transporter/3k3fdefault/1 |CAPTION= urea transporter ([[3k3f]]), resolution 2.30&Aring; (<scene name='Urea_transporter/3k3fdefault/1'>initial scene</scene>)
|SITE=
|LIGAND=
|ACTIVITY=
|GENE=
|DOMAIN=
|RELATEDENTRY=
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3k3f  FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3f  OCA], [http://www.ebi.ac.uk/pdbsum/3k3f  PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=3k3f  RCSB]</span>
}}
The structure revealed <scene name='Urea_transporter/3k3fdefault/1a> monomer of the urea transporter</scene> in the asymmetric unit.


However, the urea transporter crystallized as <scene name='Urea_transporter/3k3f_trimer/1'>a homotrimer that corresponds to its functional biological state</scene>, and this is seen when considering the crystallographic three-fold symmetry axis.


To help give a better idea of how the urea transporter is oriented in the membrane lipid bilayer, <scene name='Urea_transporter/Opm_3k3f/3'>a slab representative of hydrophobic core of the lipid bilayer</scene> as calculated by the [http://opm.phar.umich.edu/protein.php?pdbid=3kg2 Orientations of Proteins in Membranes database](University of Michigan, USA) is shown with the red patch of spheres indicating the boundary of the hydrophobic core closet to the outside of the cell and the dark blue patch of spheres indicating the boundary closest to the inside of the cell.
To help give a better idea of how the '''urea transporter''' is oriented in the membrane lipid bilayer, <scene name='Urea_transporter/Opm_3k3f/3'>a slab representative of hydrophobic core of the lipid bilayer</scene> as calculated by the [http://opm.phar.umich.edu/protein.php?pdbid=3kg2 Orientations of Proteins in Membranes database](University of Michigan, USA) is shown with the red patch of spheres indicating the boundary of the hydrophobic core closet to the outside of the cell and the dark blue patch of spheres indicating the boundary closest to the inside of the cell.
[[Image:Opm_periplasmic_topology.gif]] <!--I got this from Eric Martz's [[Mechanosensitive channels: opening and closing]]-->
[[Image:Opm_periplasmic_topology.gif]] <!--I got this from Eric Martz's [[Mechanosensitive channels: opening and closing]]-->


==PDB entry==
</StructureSection>
[[3k3f]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._hildenborough Desulfovibrio vulgaris str. hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3F OCA].
==3D structures of '''urea transporter''' or  '''solute carrier family 14'''==
 
Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
 
[[8blp]] – hUT 1 + cholesterol derivative – human<br />
[[6qd5]] – hUT 1 (mutant) + cholesterol derivative <br />
[[8blo]] – hUT 2 + choline derivative <br />
[[4ezc]] – bUT + ceramide - bovine<br />
[[4ezd]] – bUT + ceramide + selenourea<br />
[[3k3f]], [[3me1]] – DvUT – ''Desulfovibrio vulgaris''<br />
[[3m6e]] – DvUT (mutant)<br />
[[3k3g]] – DvUT + dimethylurea<br />
[[7s6e]] – UT + urea – ''synechococcus''<br />


==Reference for the structure==
==Reference for the structure==
Line 41: Line 31:
==See Also==
==See Also==
<ref group="xtra">PMID:20010678</ref><references group="xtra"/>
<ref group="xtra">PMID:20010678</ref><references group="xtra"/>
* For Additional Information, See [[Membrane Channels & Pumps]]


==Reference==
==Reference==
Line 60: Line 51:


''Page started with original page on [[3k3f]] seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jan 28 14:58:46 2010''
''Page started with original page on [[3k3f]] seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jan 28 14:58:46 2010''
[[Category:Topic Page]]

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Wayne Decatur, Jaime Prilusky, David Canner, Michal Harel, Joel L. Sussman
Retrieved from "https://proteopedia.openfox.io/w/Urea_transporter"