We apologize for Proteopedia being slow to respond. For the past two years, a new implementation of Proteopedia has been being built. Soon, it will replace this 18-year old system. All existing content will be moved to the new system at a date that will be announced here.

6t7x

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

Crystal structure of PCNA from P. abyssi

Structural highlights

6t7x is a 1 chain structure with sequence from Pyrococcus abyssi GE5. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.3Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PCNA_PYRAB Sliding clamp subunit that acts as a moving platform for DNA processing. Responsible for tethering the catalytic subunit of DNA polymerase and other proteins to DNA during high-speed replication (By similarity). Regulates activity of NucS endonuclease and prevents non-specific cleavage.[HAMAP-Rule:MF_00317]^[1]

Publication Abstract from PubMed

Replicative DNA polymerases (DNAPs) have evolved the ability to copy the genome with high processivity and fidelity. In Eukarya and Archaea, the processivity of replicative DNAPs is greatly enhanced by its binding to the proliferative cell nuclear antigen (PCNA) that encircles the DNA. We determined the cryo-EM structure of the DNA-bound PolD-PCNA complex from Pyrococcus abyssi at 3.77 A. Using an integrative structural biology approach - combining cryo-EM, X-ray crystallography, protein-protein interaction measurements, and activity assays - we describe the molecular basis for the interaction and cooperativity between a replicative DNAP and PCNA. PolD recruits PCNA via a complex mechanism, which requires two different PIP-boxes. We infer that the second PIP-box, which is shared with the eukaryotic Polalpha replicative DNAP, plays a dual role in binding either PCNA or primase, and could be a master switch between an initiation and a processive phase during replication.

Structural basis for the increased processivity of D-family DNA polymerases in complex with PCNA.,Madru C, Henneke G, Raia P, Hugonneau-Beaufet I, Pehau-Arnaudet G, England P, Lindahl E, Delarue M, Carroni M, Sauguet L Nat Commun. 2020 Mar 27;11(1):1591. doi: 10.1038/s41467-020-15392-9. PMID:32221299^[2]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Creze C, Ligabue A, Laurent S, Lestini R, Laptenok SP, Khun J, Vos MH, Czjzek M, Myllykallio H, Flament D. Modulation of the Pyrococcus abyssi NucS endonuclease activity by replication clamp at functional and structural levels. J Biol Chem. 2012 May 4;287(19):15648-60. doi: 10.1074/jbc.M112.346361. Epub 2012, Mar 19. PMID:22431731 doi:http://dx.doi.org/10.1074/jbc.M112.346361
↑ Madru C, Henneke G, Raia P, Hugonneau-Beaufet I, Pehau-Arnaudet G, England P, Lindahl E, Delarue M, Carroni M, Sauguet L. Structural basis for the increased processivity of D-family DNA polymerases in complex with PCNA. Nat Commun. 2020 Mar 27;11(1):1591. doi: 10.1038/s41467-020-15392-9. PMID:32221299 doi:http://dx.doi.org/10.1038/s41467-020-15392-9

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6t7x"

@@ Line 3: / Line 3: @@
 <StructureSection load='6t7x' size='340' side='right'caption='[[6t7x]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6t7x]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrab Pyrab]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T7X OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6T7X FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6t7x]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_abyssi_GE5 Pyrococcus abyssi GE5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T7X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6T7X FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pcn, PYRAB13790, PAB1465 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272844 PYRAB])</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]] 2.3&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6t7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t7x OCA], [http://pdbe.org/6t7x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t7x RCSB], [http://www.ebi.ac.uk/pdbsum/6t7x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t7x ProSAT]</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=6t7x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t7x OCA], [https://pdbe.org/6t7x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6t7x RCSB], [https://www.ebi.ac.uk/pdbsum/6t7x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6t7x ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/PCNA_PYRAB PCNA_PYRAB]] Sliding clamp subunit that acts as a moving platform for DNA processing. Responsible for tethering the catalytic subunit of DNA polymerase and other proteins to DNA during high-speed replication (By similarity). Regulates activity of NucS endonuclease and prevents non-specific cleavage.[HAMAP-Rule:MF_00317]<ref>PMID:22431731</ref>
+[https://www.uniprot.org/uniprot/PCNA_PYRAB PCNA_PYRAB] Sliding clamp subunit that acts as a moving platform for DNA processing. Responsible for tethering the catalytic subunit of DNA polymerase and other proteins to DNA during high-speed replication (By similarity). Regulates activity of NucS endonuclease and prevents non-specific cleavage.[HAMAP-Rule:MF_00317]<ref>PMID:22431731</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 18: / Line 18: @@
 </div>
 <div class="pdbe-citations 6t7x" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
+*[[Proliferating cell nuclear antigen 3D structures|Proliferating cell nuclear antigen 3D structures]]
 == References ==
 <references/>
@@ Line 23: / Line 27: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Pyrab]]
+[[Category: Pyrococcus abyssi GE5]]
-[[Category: Beaufet, I Hugonneau]]
+[[Category: Carroni M]]
-[[Category: Carroni, M]]
+[[Category: Delarue M]]
-[[Category: Delarue, M]]
+[[Category: Hugonneau Beaufet I]]
-[[Category: Madru, C]]
+[[Category: Madru C]]
-[[Category: Raia, P]]
+[[Category: Raia P]]
-[[Category: Sauguet, L]]
+[[Category: Sauguet L]]
-[[Category: Pcna]]
-[[Category: Pyrococcus abyssi]]
-[[Category: Replication]]
-[[Category: Sliding-clamp]]

6t7x

From Proteopedia

Current revision

Crystal structure of PCNA from P. abyssi

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox