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.


1gki

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (11:58, 13 December 2023) (edit) (undo)
 
(17 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1gki.gif|left|200px]]<br />
 
-
<applet load="1gki" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1gki, resolution 3.0&Aring;" />
 
-
'''PLASMID COUPLING PROTEIN TRWB IN COMPLEX WITH ADP AND MG2+.'''<br />
 
-
==Overview==
+
==Plasmid coupling protein TrwB in complex with ADP and Mg2+.==
-
The transfer of DNA across membranes and between cells is a central, biological process; however, its molecular mechanism remains unknown. In, prokaryotes, trans-membrane passage by bacterial conjugation, is the main, route for horizontal gene transfer. It is the means for rapid acquisition, of new genetic information, including antibiotic resistance by pathogens., Trans-kingdom gene transfer from bacteria to plants or fungi and even, bacterial sporulation are special cases of conjugation. An integral, membrane DNA-binding protein, called TrwB in the Escherichia coli R388, conjugative system, is essential for the conjugation process. This large, multimeric protein is responsible for recruiting the relaxosome, DNA-protein complex, and participates in the transfer of a single DNA, strand during cell mating. Here we report the three-dimensional structure, of a soluble variant of TrwB. The molecule consists of two domains: a, nucleotide-binding domain of alpha/beta topology, reminiscent of RecA and, DNA ring helicases, and an all-alpha domain. Six equivalent protein, monomers associate to form an almost spherical quaternary structure that, is strikingly similar to F1-ATPase. A central channel, 20 A in width, traverses the hexamer.
+
<StructureSection load='1gki' size='340' side='right'caption='[[1gki]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1gki]] is a 6 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=1GKI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GKI 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]] 3&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=1gki FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gki OCA], [https://pdbe.org/1gki PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gki RCSB], [https://www.ebi.ac.uk/pdbsum/1gki PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gki ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q04230_ECOLX Q04230_ECOLX]
 +
== 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/gk/1gki_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=1gki ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The transfer of DNA across membranes and between cells is a central biological process; however, its molecular mechanism remains unknown. In prokaryotes, trans-membrane passage by bacterial conjugation, is the main route for horizontal gene transfer. It is the means for rapid acquisition of new genetic information, including antibiotic resistance by pathogens. Trans-kingdom gene transfer from bacteria to plants or fungi and even bacterial sporulation are special cases of conjugation. An integral membrane DNA-binding protein, called TrwB in the Escherichia coli R388 conjugative system, is essential for the conjugation process. This large multimeric protein is responsible for recruiting the relaxosome DNA-protein complex, and participates in the transfer of a single DNA strand during cell mating. Here we report the three-dimensional structure of a soluble variant of TrwB. The molecule consists of two domains: a nucleotide-binding domain of alpha/beta topology, reminiscent of RecA and DNA ring helicases, and an all-alpha domain. Six equivalent protein monomers associate to form an almost spherical quaternary structure that is strikingly similar to F1-ATPase. A central channel, 20 A in width, traverses the hexamer.
-
==About this Structure==
+
The bacterial conjugation protein TrwB resembles ring helicases and F1-ATPase.,Gomis-Ruth FX, Moncalian G, Perez-Luque R, Gonzalez A, Cabezon E, de la Cruz F, Coll M Nature. 2001 Feb 1;409(6820):637-41. PMID:11214325<ref>PMID:11214325</ref>
-
1GKI 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 MG, ADP and EPE as [http://en.wikipedia.org/wiki/ligands ligands]. Structure known Active Site: ADA. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1GKI OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
The bacterial conjugation protein TrwB resembles ring helicases and F1-ATPase., Gomis-Ruth FX, Moncalian G, Perez-Luque R, Gonzalez A, Cabezon E, de la Cruz F, Coll M, Nature. 2001 Feb 1;409(6820):637-41. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11214325 11214325]
+
</div>
 +
<div class="pdbe-citations 1gki" style="background-color:#fffaf0;"></div>
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Coll, M.]]
+
[[Category: Coll M]]
-
[[Category: Cruz, F.De.La.]]
+
[[Category: De La cruz F]]
-
[[Category: Gomis-Ruth, F.X.]]
+
[[Category: Gomis-Ruth FX]]
-
[[Category: Moncalian, G.]]
+
[[Category: Moncalian G]]
-
[[Category: ADP]]
+
-
[[Category: EPE]]
+
-
[[Category: MG]]
+
-
[[Category: bacterial conjugation]]
+
-
[[Category: coupling protein]]
+
-
[[Category: f1-atpase-like quaternary structure]]
+
-
[[Category: ring helicases]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 5 16:14:21 2007''
+

Current revision

Plasmid coupling protein TrwB in complex with ADP and Mg2+.

PDB ID 1gki

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/1gki"
Personal tools