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==Crystal structure of the E. coli beta clamp mutant R103C, I305C, C260S, C333S at 2.2A resolution==
==Crystal structure of the E. coli beta clamp mutant R103C, I305C, C260S, C333S at 2.2A resolution==
<StructureSection load='3pwe' size='340' side='right' caption='[[3pwe]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
<StructureSection load='3pwe' size='340' side='right'caption='[[3pwe]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3pwe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PWE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PWE FirstGlance]. <br>
<table><tr><td colspan='2'>[[3pwe]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PWE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PWE FirstGlance]. <br>
</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">dnaN, b3701, JW3678 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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]] 2.199&#8491;</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_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] </span></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=3pwe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pwe OCA], [https://pdbe.org/3pwe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pwe RCSB], [https://www.ebi.ac.uk/pdbsum/3pwe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pwe ProSAT]</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=3pwe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pwe OCA], [http://pdbe.org/3pwe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pwe RCSB], [http://www.ebi.ac.uk/pdbsum/3pwe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pwe ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/DPO3B_ECOLI DPO3B_ECOLI]] DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. The beta chain is required for initiation of replication once it is clamped onto DNA, it slides freely (bidirectional and ATP-independent) along duplex DNA.
[https://www.uniprot.org/uniprot/DPO3B_ECOLI DPO3B_ECOLI] DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. The beta chain is required for initiation of replication once it is clamped onto DNA, it slides freely (bidirectional and ATP-independent) along duplex DNA.
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Clamp loaders load ring-shaped sliding clamps onto DNA. Once loaded onto DNA, sliding clamps bind to DNA polymerases to increase the processivity of DNA synthesis. To load clamps onto DNA, an open clamp loader-clamp complex must form. An unresolved question is whether clamp loaders capture clamps that have transiently opened, or whether clamp loaders bind closed clamps and actively open clamps. A simple fluorescence-based clamp opening assay was developed to address this question, and to determine how ATP binding contributes to clamp opening. A direct comparison of real time binding and opening reactions revealed that the Escherichia coli gamma complex binds beta first, and then opens the clamp. Mutation of conserved arginine fingers in the gamma complex that interact with bound ATP decreased clamp opening activity showing that arginine fingers make an important contribution to the ATP-induced conformational changes that allow the clamp loader to pry open the clamp.


The E. coli clamp loader can actively pry open the beta-sliding clamp.,Paschall CO, Thompson JA, Marzahn MR, Chiraniya A, Hayner JN, O'Donnell M, Robbins AH, McKenna R, Bloom LB J Biol Chem. 2011 Oct 4. PMID:21971175<ref>PMID:21971175</ref>
==See Also==
 
*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3pwe" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: DNA-directed DNA polymerase]]
[[Category: Escherichia coli K-12]]
[[Category: Ecoli]]
[[Category: Large Structures]]
[[Category: Bloom, L B]]
[[Category: Bloom LB]]
[[Category: Marzahn, M R]]
[[Category: Marzahn MR]]
[[Category: McKenna, R]]
[[Category: McKenna R]]
[[Category: Robbins, A H]]
[[Category: Robbins AH]]
[[Category: Dna polymerase beta subunit mutant]]
[[Category: Dna replication]]
[[Category: Processivity factor]]
[[Category: Sliding clamp]]
[[Category: Transferase]]

Latest revision as of 16:34, 1 March 2024

Crystal structure of the E. coli beta clamp mutant R103C, I305C, C260S, C333S at 2.2A resolutionCrystal structure of the E. coli beta clamp mutant R103C, I305C, C260S, C333S at 2.2A resolution

Structural highlights

3pwe is a 2 chain structure with sequence from Escherichia coli K-12. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.199Å
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

DPO3B_ECOLI DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. The beta chain is required for initiation of replication once it is clamped onto DNA, it slides freely (bidirectional and ATP-independent) along duplex DNA.

See Also

3pwe, resolution 2.20Å

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