2hpm
From Proteopedia
(New page: 200px<br /><applet load="2hpm" size="450" color="white" frame="true" align="right" spinBox="true" caption="2hpm, resolution 3.70Å" /> '''Eubacterial and Euka...) |
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| - | [[Image:2hpm.gif|left|200px]]<br /><applet load="2hpm" size=" | + | [[Image:2hpm.gif|left|200px]]<br /><applet load="2hpm" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="2hpm, resolution 3.70Å" /> | caption="2hpm, resolution 3.70Å" /> | ||
'''Eubacterial and Eukaryotic Replicative DNA Polymerases are not Homologous: X-ray Structure of DNA Polymerase III'''<br /> | '''Eubacterial and Eukaryotic Replicative DNA Polymerases are not Homologous: X-ray Structure of DNA Polymerase III'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The crystal structure of Thermus aquaticus DNA polymerase III alpha | + | The crystal structure of Thermus aquaticus DNA polymerase III alpha subunit reveals that the structure of the catalytic domain of the eubacterial replicative polymerase is unrelated to that of the eukaryotic replicative polymerase but rather belongs to the Polbeta-like nucleotidyltransferase superfamily. A model of the polymerase complexed with both DNA and beta-sliding clamp interacting with a reoriented binding domain and internal beta binding site was constructed that is consistent with existing biochemical data. Within the crystal, two C-terminal domains are interacting through a surface that is larger than many dimer interfaces. Since replicative polymerases of eubacteria and eukaryotes/archaea are not homologous, the nature of the replicative polymerase in the last common ancestor is unknown. Although other possibilities have been proposed, the plausibility of a ribozyme DNA polymerase should be considered. |
==About this Structure== | ==About this Structure== | ||
| - | 2HPM is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_aquaticus Thermus aquaticus] with ZN, MG, CL and 3PO as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] Full crystallographic information is available from [http:// | + | 2HPM is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_aquaticus Thermus aquaticus] with <scene name='pdbligand=ZN:'>ZN</scene>, <scene name='pdbligand=MG:'>MG</scene>, <scene name='pdbligand=CL:'>CL</scene> and <scene name='pdbligand=3PO:'>3PO</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HPM OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Thermus aquaticus]] | [[Category: Thermus aquaticus]] | ||
[[Category: Bailey, S.]] | [[Category: Bailey, S.]] | ||
| - | [[Category: Steitz, T | + | [[Category: Steitz, T A.]] |
| - | [[Category: Wing, R | + | [[Category: Wing, R A.]] |
[[Category: 3PO]] | [[Category: 3PO]] | ||
[[Category: CL]] | [[Category: CL]] | ||
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[[Category: nucleotidyltransferase fold]] | [[Category: nucleotidyltransferase fold]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 17:44:19 2008'' |
Revision as of 15:44, 21 February 2008
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Eubacterial and Eukaryotic Replicative DNA Polymerases are not Homologous: X-ray Structure of DNA Polymerase III
Overview
The crystal structure of Thermus aquaticus DNA polymerase III alpha subunit reveals that the structure of the catalytic domain of the eubacterial replicative polymerase is unrelated to that of the eukaryotic replicative polymerase but rather belongs to the Polbeta-like nucleotidyltransferase superfamily. A model of the polymerase complexed with both DNA and beta-sliding clamp interacting with a reoriented binding domain and internal beta binding site was constructed that is consistent with existing biochemical data. Within the crystal, two C-terminal domains are interacting through a surface that is larger than many dimer interfaces. Since replicative polymerases of eubacteria and eukaryotes/archaea are not homologous, the nature of the replicative polymerase in the last common ancestor is unknown. Although other possibilities have been proposed, the plausibility of a ribozyme DNA polymerase should be considered.
About this Structure
2HPM is a Single protein structure of sequence from Thermus aquaticus with , , and as ligands. Active as DNA-directed DNA polymerase, with EC number 2.7.7.7 Full crystallographic information is available from OCA.
Reference
The structure of T. aquaticus DNA polymerase III is distinct from eukaryotic replicative DNA polymerases., Bailey S, Wing RA, Steitz TA, Cell. 2006 Sep 8;126(5):893-904. PMID:16959569
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