2bz2: Difference between revisions

From Proteopedia
Jump to navigation Jump to search
New page: left|200px<br /> <applet load="2bz2" size="450" color="white" frame="true" align="right" spinBox="true" caption="2bz2" /> '''SOLUTION STRUCTURE OF NELF E RRM'''<br /> ...
 
No edit summary
 
(16 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:2bz2.gif|left|200px]]<br />
<applet load="2bz2" size="450" color="white" frame="true" align="right" spinBox="true"
caption="2bz2" />
'''SOLUTION STRUCTURE OF NELF E RRM'''<br />


==Overview==
==Solution structure of NELF E RRM==
The elongation of transcription of HIV RNA at the TAR, (transactivation-response element) is highly regulated by positive and, negative factors. The cellular negative transcription elongation factor, NELF (negative elongation factor) was suggested to be involved in, transcriptional regulation of HIV-1 (HIV type 1) by binding to the stem of, the viral TAR RNA which is synthesized by cellular RNA polymerase II at, the viral long terminal repeat. NELF is a heterotetrameric protein, consisting of NELF A, B, C or the splice variant D, and E. In the present, study, we determined the solution structure of the RRM (RNA-recognition, motif) of the RNA-binding subunit NELF E and studied its interaction with, the viral TAR RNA. Our results show that the separately expressed, recombinant NELF E RRM has alpha-helical and beta-strand elements adopting, a betaalphabetabetaalphabeta fold and is able to bind to TAR RNA., Fluorescence equilibrium titrations with fluorescently labelled double-, and single-stranded oligoribonucleotides representing the TAR RNA stem, imply that NELF E RRM binds to the single-stranded TAR RNAs with K(d), values in the low-micromolar range.
<StructureSection load='2bz2' size='340' side='right'caption='[[2bz2]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2bz2]] 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=2BZ2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BZ2 FirstGlance]. <br>
</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=2bz2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bz2 OCA], [https://pdbe.org/2bz2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bz2 RCSB], [https://www.ebi.ac.uk/pdbsum/2bz2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bz2 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/NELFE_HUMAN NELFE_HUMAN] Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex.<ref>PMID:10199401</ref> <ref>PMID:11940650</ref> <ref>PMID:12612062</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/bz/2bz2_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=2bz2 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The elongation of transcription of HIV RNA at the TAR (transactivation-response element) is highly regulated by positive and negative factors. The cellular negative transcription elongation factor NELF (negative elongation factor) was suggested to be involved in transcriptional regulation of HIV-1 (HIV type 1) by binding to the stem of the viral TAR RNA which is synthesized by cellular RNA polymerase II at the viral long terminal repeat. NELF is a heterotetrameric protein consisting of NELF A, B, C or the splice variant D, and E. In the present study, we determined the solution structure of the RRM (RNA-recognition motif) of the RNA-binding subunit NELF E and studied its interaction with the viral TAR RNA. Our results show that the separately expressed recombinant NELF E RRM has alpha-helical and beta-strand elements adopting a betaalphabetabetaalphabeta fold and is able to bind to TAR RNA. Fluorescence equilibrium titrations with fluorescently labelled double- and single-stranded oligoribonucleotides representing the TAR RNA stem imply that NELF E RRM binds to the single-stranded TAR RNAs with K(d) values in the low-micromolar range.


==About this Structure==
Structural studies on the RNA-recognition motif of NELF E, a cellular negative transcription elongation factor involved in the regulation of HIV transcription.,Rao JN, Neumann L, Wenzel S, Schweimer K, Rosch P, Wohrl BM Biochem J. 2006 Dec 15;400(3):449-56. PMID:16898873<ref>PMID:16898873</ref>
2BZ2 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2BZ2 OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Structural studies on the RNA-recognition motif of NELF E, a cellular negative transcription elongation factor involved in the regulation of HIV transcription., Rao JN, Neumann L, Wenzel S, Schweimer K, Rosch P, Wohrl BM, Biochem J. 2006 Dec 15;400(3):449-56. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16898873 16898873]
</div>
<div class="pdbe-citations 2bz2" style="background-color:#fffaf0;"></div>
 
==See Also==
*[[Negative elongation factor|Negative elongation factor]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Neumann, L.]]
[[Category: Neumann L]]
[[Category: Rao, J.N.]]
[[Category: Rao JN]]
[[Category: Rosch, P.]]
[[Category: Rosch P]]
[[Category: Schweimer, K.]]
[[Category: Schweimer K]]
[[Category: Wohrl, B.M.]]
[[Category: Wohrl BM]]
[[Category: alternative splicing]]
[[Category: nelf e]]
[[Category: nuclear protein]]
[[Category: phosphorylation]]
[[Category: repeat]]
[[Category: repressor]]
[[Category: rna recognition motif]]
[[Category: rna-binding]]
[[Category: transcription]]
[[Category: transcription regulation]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Thu Nov  8 14:45:06 2007''

Latest revision as of 08:34, 15 May 2024

Solution structure of NELF E RRMSolution structure of NELF E RRM

Structural highlights

2bz2 is a 1 chain structure with sequence from Homo sapiens. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:Solution NMR
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

NELFE_HUMAN Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex.[1] [2] [3]

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

The elongation of transcription of HIV RNA at the TAR (transactivation-response element) is highly regulated by positive and negative factors. The cellular negative transcription elongation factor NELF (negative elongation factor) was suggested to be involved in transcriptional regulation of HIV-1 (HIV type 1) by binding to the stem of the viral TAR RNA which is synthesized by cellular RNA polymerase II at the viral long terminal repeat. NELF is a heterotetrameric protein consisting of NELF A, B, C or the splice variant D, and E. In the present study, we determined the solution structure of the RRM (RNA-recognition motif) of the RNA-binding subunit NELF E and studied its interaction with the viral TAR RNA. Our results show that the separately expressed recombinant NELF E RRM has alpha-helical and beta-strand elements adopting a betaalphabetabetaalphabeta fold and is able to bind to TAR RNA. Fluorescence equilibrium titrations with fluorescently labelled double- and single-stranded oligoribonucleotides representing the TAR RNA stem imply that NELF E RRM binds to the single-stranded TAR RNAs with K(d) values in the low-micromolar range.

Structural studies on the RNA-recognition motif of NELF E, a cellular negative transcription elongation factor involved in the regulation of HIV transcription.,Rao JN, Neumann L, Wenzel S, Schweimer K, Rosch P, Wohrl BM Biochem J. 2006 Dec 15;400(3):449-56. PMID:16898873[4]

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

See Also

References

  1. ↑ Yamaguchi Y, Takagi T, Wada T, Yano K, Furuya A, Sugimoto S, Hasegawa J, Handa H. NELF, a multisubunit complex containing RD, cooperates with DSIF to repress RNA polymerase II elongation. Cell. 1999 Apr 2;97(1):41-51. PMID:10199401
  2. ↑ Yamaguchi Y, Inukai N, Narita T, Wada T, Handa H. Evidence that negative elongation factor represses transcription elongation through binding to a DRB sensitivity-inducing factor/RNA polymerase II complex and RNA. Mol Cell Biol. 2002 May;22(9):2918-27. PMID:11940650
  3. ↑ Narita T, Yamaguchi Y, Yano K, Sugimoto S, Chanarat S, Wada T, Kim DK, Hasegawa J, Omori M, Inukai N, Endoh M, Yamada T, Handa H. Human transcription elongation factor NELF: identification of novel subunits and reconstitution of the functionally active complex. Mol Cell Biol. 2003 Mar;23(6):1863-73. PMID:12612062
  4. ↑ Rao JN, Neumann L, Wenzel S, Schweimer K, Rosch P, Wohrl BM. Structural studies on the RNA-recognition motif of NELF E, a cellular negative transcription elongation factor involved in the regulation of HIV transcription. Biochem J. 2006 Dec 15;400(3):449-56. PMID:16898873 doi:10.1042/BJ20060421
Drag the structure with the mouse to rotate

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

OCA
Retrieved from "https://proteopedia.openfox.io/wiki/index.php?title=2bz2&oldid=4151923"