3s2h

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (12:44, 14 March 2024) (edit) (undo)
 
(5 intermediate revisions not shown.)
Line 1: Line 1:
 +
==RNA Polymerase II Initiation Complex with a 6-nt RNA containing a 2[prime]-iodo ATP==
==RNA Polymerase II Initiation Complex with a 6-nt RNA containing a 2[prime]-iodo ATP==
-
<StructureSection load='3s2h' size='340' side='right' caption='[[3s2h]], [[Resolution|resolution]] 3.30&Aring;' scene=''>
+
<StructureSection load='3s2h' size='340' side='right'caption='[[3s2h]], [[Resolution|resolution]] 3.30&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3s2h]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3S2H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3S2H FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3s2h]] is a 10 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=3S2H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3S2H FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 3.3&#8491;</td></tr>
-
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=2IA:2-DEOXY-2-IODOADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>2IA</scene></td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2IA:2-DEOXY-2-IODOADENOSINE+5-(DIHYDROGEN+PHOSPHATE)'>2IA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3s1m|3s1m]], [[3rzo|3rzo]], [[3s1n|3s1n]], [[3s1q|3s1q]], [[3s1r|3s1r]], [[3s2d|3s2d]], [[3rzd|3rzd]], [[3s14|3s14]], [[3s15|3s15]], [[3s16|3s16]], [[3s17|3s17]]</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=3s2h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3s2h OCA], [https://pdbe.org/3s2h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3s2h RCSB], [https://www.ebi.ac.uk/pdbsum/3s2h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3s2h ProSAT]</span></td></tr>
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </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=3s2h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3s2h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3s2h RCSB], [http://www.ebi.ac.uk/pdbsum/3s2h PDBsum]</span></td></tr>
+
</table>
</table>
-
<div style="background-color:#fffaf0;">
+
== Function ==
-
== Publication Abstract from PubMed ==
+
[https://www.uniprot.org/uniprot/RPAB3_YEAST RPAB3_YEAST] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non-coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively.
-
The initiation of transcription by RNA polymerase II is a multistage process. X-ray crystal structures of transcription complexes containing short RNAs reveal three structural states: one with 2- and 3-nucleotide RNAs, in which only the 3'-end of the RNA is detectable; a second state with 4- and 5-nucleotide RNAs, with an RNA-DNA hybrid in a grossly distorted conformation; and a third state with RNAs of 6 nucleotides and longer, essentially the same as a stable elongating complex. The transition from the first to the second state correlates with a markedly reduced frequency of abortive initiation. The transition from the second to the third state correlates with partial "bubble collapse" and promoter escape. Polymerase structure is permissive for abortive initiation, thereby setting a lower limit on polymerase-promoter complex lifetime and allowing the dissociation of nonspecific complexes. Abortive initiation may be viewed as promoter proofreading, and the structural transitions as checkpoints for promoter control.
+
-
 
+
-
Initiation complex structure and promoter proofreading.,Liu X, Bushnell DA, Silva DA, Huang X, Kornberg RD Science. 2011 Jul 29;333(6042):633-7. PMID:21798951<ref>PMID:21798951</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
==See Also==
==See Also==
-
*[[RNA polymerase|RNA polymerase]]
+
*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: DNA-directed RNA polymerase]]
+
[[Category: Large Structures]]
-
[[Category: Saccharomyces cerevisiae]]
+
[[Category: Saccharomyces cerevisiae S288C]]
-
[[Category: Bushnell, D A]]
+
[[Category: Bushnell DA]]
-
[[Category: Huang, X]]
+
[[Category: Huang X]]
-
[[Category: Kornberg, R D]]
+
[[Category: Kornberg RD]]
-
[[Category: Liu, X]]
+
[[Category: Liu X]]
-
[[Category: Silva, D A]]
+
[[Category: Silva DA]]
-
[[Category: Initiation complex]]
+
-
[[Category: Rna polymerase ii]]
+
-
[[Category: Transcription-rna-dna complex]]
+

Current revision

RNA Polymerase II Initiation Complex with a 6-nt RNA containing a 2[prime]-iodo ATP

PDB ID 3s2h

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3s2h"
Personal tools