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.

1x3u

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 16:44, 11 April 2018

Solution structure of the C-terminal transcriptional activator domain of FixJ from Sinorhizobium melilot

Structural highlights

1x3u is a 1 chain structure with sequence from Atcc 9930. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Gene:	fixJ (ATCC 9930)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[FIXJ_RHIME] FixJ, when activated by FixL, induces the expression of both nifA, required for activation of classical nif and fix genes, and fixK, required for FixN activation.

Evolutionary Conservation

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

Publication Abstract from PubMed

FixJ is a response regulator of the two-component signal transduction pathway involved in the transcriptional activation of nitrogen fixation genes of Sinorhizobium meliloti. Upon phosphorylation, FixJ transcriptionally activates the fixK and nifA promoters. We identified a FixJ recognition sequence of 16 bp in the high affinity binding site of the fixK promoter by means of a gel shift assay. In addition, the solution structure of the truncated C-terminal DNA binding domain of FixJ (FixJC) was solved by NMR spectroscopy. FixJC contains five alpha-helices that encode a typical helix-turn-helix motif as a potential DNA binding core with the highest structural similarity toward the C-terminal DNA binding domain of NarL. The addition of the DNA fragment containing the recognition sequence of the high affinity FixJ binding site resulted in intermediate to slow exchange interactions on the NMR time scale in the spectrum of FixJC, while the exchange was rapid in the case of control DNA. These spectral data suggest that more than one molecule of FixJC binds to the recognition sequence, although FixJC alone is present in monomeric form in solution. This result is consistent with a scenario in which a transcriptionally active species of FixJ is a homodimer of the phosphorylated form.

Solution structure of the C-terminal transcriptional activator domain of FixJ from Sinorhizobium meliloti and its recognition of the fixK promoter.,Kurashima-Ito K, Kasai Y, Hosono K, Tamura K, Oue S, Isogai M, Ito Y, Nakamura H, Shiro Y Biochemistry. 2005 Nov 15;44(45):14835-44. PMID:16274231^[1]

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

References

↑ Kurashima-Ito K, Kasai Y, Hosono K, Tamura K, Oue S, Isogai M, Ito Y, Nakamura H, Shiro Y. Solution structure of the C-terminal transcriptional activator domain of FixJ from Sinorhizobium meliloti and its recognition of the fixK promoter. Biochemistry. 2005 Nov 15;44(45):14835-44. PMID:16274231 doi:10.1021/bi0509043

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1x3u"

@@ Line 1: / Line 1: @@
 ==Solution structure of the C-terminal transcriptional activator domain of FixJ from Sinorhizobium melilot==
 <StructureSection load='1x3u' size='340' side='right' caption='[[1x3u]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
@@ Line 4: / Line 5: @@
 <table><tr><td colspan='2'>[[1x3u]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_9930 Atcc 9930]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1X3U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1X3U FirstGlance]. <br>
 </td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">fixJ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=382 ATCC 9930])</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=1x3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1x3u OCA], [http://pdbe.org/1x3u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1x3u RCSB], [http://www.ebi.ac.uk/pdbsum/1x3u PDBsum]</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=1x3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1x3u OCA], [http://pdbe.org/1x3u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1x3u RCSB], [http://www.ebi.ac.uk/pdbsum/1x3u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1x3u ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 12: / Line 13: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/x3/1x3u_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/x3/1x3u_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>

1x3u

From Proteopedia

Revision as of 16:44, 11 April 2018

Solution structure of the C-terminal transcriptional activator domain of FixJ from Sinorhizobium melilot

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox