1xqe: Difference between revisions

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New page: left|200px<br /><applet load="1xqe" size="450" color="white" frame="true" align="right" spinBox="true" caption="1xqe, resolution 2.10Å" /> '''The mechanism of amm...
 
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[[Image:1xqe.gif|left|200px]]<br /><applet load="1xqe" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1xqe, resolution 2.10&Aring;" />
'''The mechanism of ammonia transport based on the crystal structure of AmtB of E. coli.'''<br />


==Overview==
==The mechanism of ammonia transport based on the crystal structure of AmtB of E. coli.==
Ammonium is one of the most important nitrogen sources for bacteria, fungi, and plants, but it is toxic to animals. The ammonium transport, proteins (methylamine permeases/ammonium transporters/rhesus) are present, in all domains of life; however, functional studies with members of this, family have yielded controversial results with respect to the chemical, identity (NH(4)(+) or NH(3)) of the transported species. We have solved, the structure of wild-type AmtB from Escherichia coli in two crystal forms, at 1.8- and 2.1-A resolution, respectively. Substrate transport occurs, through a narrow mainly hydrophobic pore located at the center of each, monomer of the trimeric AmtB. At the periplasmic entry, a binding site for, NH(4)(+) is observed. Two phenylalanine side chains (F107 and F215) block, access into the pore from the periplasmic side. Further into the pore, the, side chains of two highly conserved histidine residues (H168 and H318), bridged by a H-bond lie adjacent, with their edges pointing into the, cavity. These histidine residues may facilitate the deprotonation of an, ammonium ion entering the pore. Adiabatic free energy calculations support, the hypothesis that an electrostatic barrier between H168 and H318 hinders, the permeation of cations but not that of the uncharged NH(3.) The, structural data and energetic considerations strongly indicate that the, methylamine permeases/ammonium transporters/rhesus proteins are ammonia, gas channels. Interestingly, at the cytoplasmic exit of the pore, two, different conformational states are observed that might be related to the, inactivation mechanism by its regulatory partner.
<StructureSection load='1xqe' size='340' side='right'caption='[[1xqe]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1xqe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XQE FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=1xqe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqe OCA], [https://pdbe.org/1xqe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xqe RCSB], [https://www.ebi.ac.uk/pdbsum/1xqe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xqe ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/AMTB_ECOLI AMTB_ECOLI] Involved in the uptake of ammonia.
== 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/xq/1xqe_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=1xqe ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1XQE is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with SO4 and ACT as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1XQE OCA].
*[[Ion channels 3D structures|Ion channels 3D structures]]
 
__TOC__
==Reference==
</StructureSection>
The mechanism of ammonia transport based on the crystal structure of AmtB of Escherichia coli., Zheng L, Kostrewa D, Berneche S, Winkler FK, Li XD, Proc Natl Acad Sci U S A. 2004 Dec 7;101(49):17090-5. Epub 2004 Nov 24. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15563598 15563598]
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Berneche, S.]]
[[Category: Berneche S]]
[[Category: Kostrewa, D.]]
[[Category: Kostrewa D]]
[[Category: Li, X.D.]]
[[Category: Li X-D]]
[[Category: Winkler, F.K.]]
[[Category: Winkler FK]]
[[Category: Zheng, L.]]
[[Category: Zheng L]]
[[Category: ACT]]
[[Category: SO4]]
[[Category: ammonia transport]]
[[Category: open conformation]]
[[Category: wild type]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 06:15:47 2007''

Latest revision as of 16:36, 13 March 2024

The mechanism of ammonia transport based on the crystal structure of AmtB of E. coli.The mechanism of ammonia transport based on the crystal structure of AmtB of E. coli.

Structural highlights

1xqe is a 1 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.1Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

AMTB_ECOLI Involved in the uptake of ammonia.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

1xqe, resolution 2.10Å

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