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3lpe

From Proteopedia

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{{Seed}}
 
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[[Image:3lpe.jpg|left|200px]]
 
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==Crystal structure of Spt4/5NGN heterodimer complex from Methanococcus jannaschii==
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The line below this paragraph, containing "STRUCTURE_3lpe", creates the "Structure Box" on the page.
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<StructureSection load='3lpe' size='340' side='right'caption='[[3lpe]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3lpe]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LPE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3LPE FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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{{STRUCTURE_3lpe| PDB=3lpe | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3lpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lpe OCA], [https://pdbe.org/3lpe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3lpe RCSB], [https://www.ebi.ac.uk/pdbsum/3lpe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3lpe ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/SPT5_METJA SPT5_METJA] Stimulates transcription elongation.[HAMAP-Rule:MF_00950]<ref>PMID:20197319</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/lp/3lpe_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=3lpe ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Spt5 is the only known RNA polymerase-associated factor that is conserved in all three domains of life. We have solved the structure of the Methanococcus jannaschii Spt4/5 complex by X-ray crystallography, and characterized its function and interaction with the archaeal RNAP in a wholly recombinant in vitro transcription system. Archaeal Spt4 and Spt5 form a stable complex that associates with RNAP independently of the DNA-RNA scaffold of the elongation complex. The association of Spt4/5 with RNAP results in a stimulation of transcription processivity, both in the absence and the presence of the non-template strand. A domain deletion analysis reveals the molecular anatomy of Spt4/5--the Spt5 Nus-G N-terminal (NGN) domain is the effector domain of the complex that both mediates the interaction with RNAP and is essential for its elongation activity. Using a mutagenesis approach, we have identified a hydrophobic pocket on the Spt5 NGN domain as binding site for RNAP, and reciprocally the RNAP clamp coiled-coil motif as binding site for Spt4/5.
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===Crystal structure of Spt4/5NGN heterodimer complex from Methanococcus jannaschii===
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Spt4/5 stimulates transcription elongation through the RNA polymerase clamp coiled-coil motif.,Hirtreiter A, Damsma GE, Cheung AC, Klose D, Grohmann D, Vojnic E, Martin AC, Cramer P, Werner F Nucleic Acids Res. 2010 Jul 1;38(12):4040-51. Epub 2010 Mar 2. PMID:20197319<ref>PMID:20197319</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3lpe" style="background-color:#fffaf0;"></div>
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==About this Structure==
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==See Also==
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3LPE is a 8 chains structure with sequences from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LPE OCA].
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*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
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[[Category: DNA-directed RNA polymerase]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
[[Category: Methanocaldococcus jannaschii]]
[[Category: Methanocaldococcus jannaschii]]
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[[Category: Cheung, A C.M.]]
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[[Category: Cheung ACM]]
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[[Category: Cramer, P.]]
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[[Category: Cramer P]]
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[[Category: Damsma, G E.]]
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[[Category: Damsma GE]]
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[[Category: Grohmann, D.]]
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[[Category: Grohmann D]]
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[[Category: Hirtreiter, A.]]
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[[Category: Hirtreiter A]]
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[[Category: Klose, D.]]
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[[Category: Klose D]]
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[[Category: Martin, A C.R.]]
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[[Category: Martin ACR]]
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[[Category: Vojnic, E.]]
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[[Category: Vojnic E]]
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[[Category: Werner, F.]]
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[[Category: Werner F]]
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[[Category: Archaea]]
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[[Category: Dna-directed rna polymerase]]
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[[Category: Evolution]]
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[[Category: Metal-binding]]
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[[Category: Nucleotidyltransferase]]
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[[Category: Nusg]]
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[[Category: Spt4]]
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[[Category: Spt5]]
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[[Category: Transcription]]
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[[Category: Transcription regulation]]
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[[Category: Transferase]]
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[[Category: Zinc-finger]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 10 14:49:00 2010''
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Current revision

Crystal structure of Spt4/5NGN heterodimer complex from Methanococcus jannaschii

PDB ID 3lpe

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