2b8k
From Proteopedia
(New page: 200px<br /><applet load="2b8k" size="450" color="white" frame="true" align="right" spinBox="true" caption="2b8k, resolution 4.150Å" /> '''12-subunit RNA Poly...) |
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| - | [[Image:2b8k.gif|left|200px]]<br /><applet load="2b8k" size=" | + | [[Image:2b8k.gif|left|200px]]<br /><applet load="2b8k" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="2b8k, resolution 4.150Å" /> | caption="2b8k, resolution 4.150Å" /> | ||
'''12-subunit RNA Polymerase II'''<br /> | '''12-subunit RNA Polymerase II'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Macromolecular assemblies as large as RNA polymerase II (Pol II) can be | + | Macromolecular assemblies as large as RNA polymerase II (Pol II) can be phased by a few intrinsically bound Zn atoms, by using MAD experiments as described here. A phasing effectiveness of 570 aa/Zn is attained for Pol II. The resulting experimental, unbiased electron density map is of such quality that it confirms the existing crystallographic model and further reveals structural regions not shown by model phases, thus updating the Pol II model at three sites. The mechanistically important fork loop-1 element is observed to be ordered in the absence of nucleic acids, suggesting additional insights into the mechanisms that maintain the stability of the transcription ternary complex and allow its release. Furthermore, a computational experiment with simulated MAD data sets demonstrates that 1 Zn site is able to provide adequate experimental phase information for as many as 1100 amino acids of polypeptide, under the conditions of the current synchrotron and detector technologies. |
==About this Structure== | ==About this Structure== | ||
| - | 2B8K is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] with ZN as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [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] Full crystallographic information is available from [http:// | + | 2B8K is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] with <scene name='pdbligand=ZN:'>ZN</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [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] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B8K OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Saccharomyces cerevisiae]] | [[Category: Saccharomyces cerevisiae]] | ||
[[Category: Fu, J.]] | [[Category: Fu, J.]] | ||
| - | [[Category: Meyer, P | + | [[Category: Meyer, P A.]] |
| - | [[Category: Suh, M | + | [[Category: Suh, M H.]] |
[[Category: Ye, P.]] | [[Category: Ye, P.]] | ||
[[Category: Zhang, M.]] | [[Category: Zhang, M.]] | ||
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[[Category: zinc]] | [[Category: zinc]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:35:17 2008'' |
Revision as of 14:35, 21 February 2008
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12-subunit RNA Polymerase II
Overview
Macromolecular assemblies as large as RNA polymerase II (Pol II) can be phased by a few intrinsically bound Zn atoms, by using MAD experiments as described here. A phasing effectiveness of 570 aa/Zn is attained for Pol II. The resulting experimental, unbiased electron density map is of such quality that it confirms the existing crystallographic model and further reveals structural regions not shown by model phases, thus updating the Pol II model at three sites. The mechanistically important fork loop-1 element is observed to be ordered in the absence of nucleic acids, suggesting additional insights into the mechanisms that maintain the stability of the transcription ternary complex and allow its release. Furthermore, a computational experiment with simulated MAD data sets demonstrates that 1 Zn site is able to provide adequate experimental phase information for as many as 1100 amino acids of polypeptide, under the conditions of the current synchrotron and detector technologies.
About this Structure
2B8K is a Protein complex structure of sequences from Saccharomyces cerevisiae with as ligand. Active as DNA-directed RNA polymerase, with EC number 2.7.7.6 Full crystallographic information is available from OCA.
Reference
Phasing RNA polymerase II using intrinsically bound Zn atoms: an updated structural model., Meyer PA, Ye P, Zhang M, Suh MH, Fu J, Structure. 2006 Jun;14(6):973-82. PMID:16765890
Page seeded by OCA on Thu Feb 21 16:35:17 2008
