4ytk: Difference between revisions

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<StructureSection load='4ytk' size='340' side='right'caption='[[4ytk]], [[Resolution|resolution]] 1.09&Aring;' scene=''>
<StructureSection load='4ytk' size='340' side='right'caption='[[4ytk]], [[Resolution|resolution]] 1.09&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[4ytk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YTK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YTK FirstGlance]. <br>
<table><tr><td colspan='2'>[[4ytk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YTK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YTK FirstGlance]. <br>
</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SPT5, YML010W, YM9571.08 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.0904&#8491;</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=4ytk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ytk OCA], [http://pdbe.org/4ytk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ytk RCSB], [http://www.ebi.ac.uk/pdbsum/4ytk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ytk ProSAT]</span></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=4ytk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ytk OCA], [https://pdbe.org/4ytk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ytk RCSB], [https://www.ebi.ac.uk/pdbsum/4ytk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ytk ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/SPT5_YEAST SPT5_YEAST]] The SPT4-SPT5 complex mediates both activation and inhibition of transcription elongation, and plays a role in pre-mRNA processing. This complex seems to be important for the stability of the RNA polymerase II elongation machinery on the chromatin template but not for the inherent ability of this machinery to translocate down the gene.<ref>PMID:12554661</ref> <ref>PMID:12556496</ref> <ref>PMID:15780939</ref> <ref>PMID:16172632</ref> <ref>PMID:9450930</ref> 
[https://www.uniprot.org/uniprot/SPT5_YEAST SPT5_YEAST] The SPT4-SPT5 complex mediates both activation and inhibition of transcription elongation, and plays a role in pre-mRNA processing. This complex seems to be important for the stability of the RNA polymerase II elongation machinery on the chromatin template but not for the inherent ability of this machinery to translocate down the gene.<ref>PMID:12554661</ref> <ref>PMID:12556496</ref> <ref>PMID:15780939</ref> <ref>PMID:16172632</ref> <ref>PMID:9450930</ref>  
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The eukaryotic Spt4-Spt5 heterodimer forms a higher-order complex with RNA polymerase II (and I) to regulate transcription elongation. Extensive genetic and functional data have revealed diverse roles of Spt4-Spt5 in coupling elongation with chromatin modification and RNA processing pathways. Mechanistic understanding of the diverse functions of Spt4-Spt5 is hampered by challenges in resolving the distribution of functions amongst its structural domains including the five KOW domains in Spt5 and a lack of their high-resolution structures. We present high-resolution crystallographic results demonstrating that distinct structures are formed by the first through third KOW domains (KOW1-Linker1 and KOW2-KOW3) of yeast Spt5. The structure reveals that KOW1-Linker1 (K1L1) displays a positively charged patch (PCP) on its surface, which binds nucleic acids in vitro as shown in biochemical assays and is important for in vivo function as shown in growth assays. Furthermore, assays in yeast show that the PCP carries a function that partially overlaps that of Spt4. A synthesis of our results with previous evidence suggests a model in which Spt4 and the K1L1 domain of Spt5 form functionally overlapping interactions with nucleic acids upstream of the transcription bubble, and this mechanism may endow robustness to processes associated with transcription elongation.
 
Structures and functions of the multiple KOW domains of transcription elongation factor Spt5.,Meyer PA, Li S, Zhang M, Yamada K, Takagi Y, Hartzog GA, Fu J Mol Cell Biol. 2015 Jul 27. pii: MCB.00520-15. PMID:26217010<ref>PMID:26217010</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 4ytk" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Baker's yeast]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Fu, J]]
[[Category: Saccharomyces cerevisiae S288C]]
[[Category: Hartzog, G A]]
[[Category: Fu J]]
[[Category: Li, S]]
[[Category: Hartzog GA]]
[[Category: Meyer, P A]]
[[Category: Li S]]
[[Category: Takagi, Y]]
[[Category: Meyer PA]]
[[Category: Yamada, K]]
[[Category: Takagi Y]]
[[Category: Zhang, M]]
[[Category: Yamada K]]
[[Category: Elongation]]
[[Category: Zhang M]]
[[Category: Protein-dna interaction]]
[[Category: Rna processing]]
[[Category: Transcription]]

Latest revision as of 16:04, 1 March 2024

Structure of the KOW1-Linker1 domain of Transcription Elongation Factor Spt5Structure of the KOW1-Linker1 domain of Transcription Elongation Factor Spt5

Structural highlights

4ytk is a 1 chain structure with sequence from Saccharomyces cerevisiae S288C. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.0904Å
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SPT5_YEAST The SPT4-SPT5 complex mediates both activation and inhibition of transcription elongation, and plays a role in pre-mRNA processing. This complex seems to be important for the stability of the RNA polymerase II elongation machinery on the chromatin template but not for the inherent ability of this machinery to translocate down the gene.[1] [2] [3] [4] [5]

See Also

References

  1. ↑ Rondon AG, Garcia-Rubio M, Gonzalez-Barrera S, Aguilera A. Molecular evidence for a positive role of Spt4 in transcription elongation. EMBO J. 2003 Feb 3;22(3):612-20. PMID:12554661 doi:http://dx.doi.org/10.1093/emboj/cdg047
  2. ↑ Lindstrom DL, Squazzo SL, Muster N, Burckin TA, Wachter KC, Emigh CA, McCleery JA, Yates JR 3rd, Hartzog GA. Dual roles for Spt5 in pre-mRNA processing and transcription elongation revealed by identification of Spt5-associated proteins. Mol Cell Biol. 2003 Feb;23(4):1368-78. PMID:12556496
  3. ↑ Mason PB, Struhl K. Distinction and relationship between elongation rate and processivity of RNA polymerase II in vivo. Mol Cell. 2005 Mar 18;17(6):831-40. PMID:15780939 doi:http://dx.doi.org/S1097-2765(05)01116-0
  4. ↑ Xiao Y, Yang YH, Burckin TA, Shiue L, Hartzog GA, Segal MR. Analysis of a splice array experiment elucidates roles of chromatin elongation factor Spt4-5 in splicing. PLoS Comput Biol. 2005 Sep;1(4):e39. Epub 2005 Sep 16. PMID:16172632 doi:http://dx.doi.org/10.1371/journal.pcbi.0010039
  5. ↑ Hartzog GA, Wada T, Handa H, Winston F. Evidence that Spt4, Spt5, and Spt6 control transcription elongation by RNA polymerase II in Saccharomyces cerevisiae. Genes Dev. 1998 Feb 1;12(3):357-69. PMID:9450930

4ytk, resolution 1.09Å

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