6dta: Difference between revisions

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<StructureSection load='6dta' size='340' side='right'caption='[[6dta]], [[Resolution|resolution]] 2.69&Aring;' scene=''>
<StructureSection load='6dta' size='340' side='right'caption='[[6dta]], [[Resolution|resolution]] 2.69&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[6dta]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpn4 Bpn4]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6c2p 6c2p]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DTA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DTA FirstGlance]. <br>
<table><tr><td colspan='2'>[[6dta]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_N4 Escherichia virus N4] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6c2p 6c2p]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DTA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DTA FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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]] 2.694&#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=6dta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dta OCA], [http://pdbe.org/6dta PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dta RCSB], [http://www.ebi.ac.uk/pdbsum/6dta PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dta ProSAT]</span></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</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=6dta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dta OCA], [https://pdbe.org/6dta PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6dta RCSB], [https://www.ebi.ac.uk/pdbsum/6dta PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6dta ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Function ==
== Publication Abstract from PubMed ==
[https://www.uniprot.org/uniprot/Q8LTE4_BPN4 Q8LTE4_BPN4]
Genomes of phages, mitochondria, and chloroplasts are transcribed by a diverse group of transcriptional machineries with structurally related single-subunit RNA polymerases (RNAPs). Our understanding of transcription mechanisms of these enzymes is predominantly based on biochemical and structural studies of three most-studied members, transcription factor-independent phage T7 RNAP, transcription factor-dependent phage N4 virion-encapsidated RNAP, and transcription factor-dependent mitochondrial RNAPs (mtRNAP). Although these RNAPs employ completely different mechanisms for promoter recognition and transcription termination, these enzymes are relatively large and formed by single polypeptides. Historically being a model enzyme for studying the mechanisms of transcription by T7-like RNAPs, however, T7 RNAP represents only a small group of RNAPs in this family. The vast majority of T7-like RNAPs are transcription factor-dependent, and several of them are heterodimeric enzymes. Here, we report X-ray crystal structures of transcription complexes of the smallest and heterodimeric form of T7-like RNAP, bacteriophage N4 RNAPII, providing insights into the structural organization of a minimum RNAP in this family. We analyze structural and functional aspects of heterodimeric architecture of N4 RNAPII concerning the mechanisms of transcription initiation and transition to processive RNA elongation. Interestingly, N4 RNAPII maintains the same conformation in promoter-bound and elongation transcription complexes, revealing a novel transcription mechanism for single-subunit RNAPs. This work establishes a structural basis for studying mechanistic aspects of transcription by factor-dependent minimum RNAP.
 
Minimalism and functionality: Structural lessons from the heterodimeric N4 bacteriophage RNA polymerase II.,Molodtsov V, Murakami KS J Biol Chem. 2018 Aug 31;293(35):13616-13625. doi: 10.1074/jbc.RA118.003447. Epub, 2018 Jul 10. PMID:29991593<ref>PMID:29991593</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 6dta" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Bpn4]]
[[Category: Escherichia virus N4]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Molodtsov, V]]
[[Category: Synthetic construct]]
[[Category: Murakami, K S]]
[[Category: Molodtsov V]]
[[Category: Bacteriophage]]
[[Category: Murakami KS]]
[[Category: N4]]
[[Category: Rna polymerase]]
[[Category: Transcription]]
[[Category: Transcription-dna-rna complex]]

Latest revision as of 17:36, 13 March 2024

Bacteriophage N4 RNA polymerase II elongation complex 2Bacteriophage N4 RNA polymerase II elongation complex 2

Structural highlights

6dta is a 4 chain structure with sequence from Escherichia virus N4 and Synthetic construct. This structure supersedes the now removed PDB entry 6c2p. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.694Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q8LTE4_BPN4

6dta, resolution 2.69Å

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