4hik: Difference between revisions

Latest revision as of 07:01, 27 November 2024

Crystal Structure of Schizosaccharomyces pombe Pot1pC bound to ssDNA (GGTTACGGT)

Structural highlights

4hik is a 2 chain structure with sequence from Schizosaccharomyces pombe 972h-. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.636Å
Ligands:	MSE
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

POT1_SCHPO Single-stranded telomeric DNA-binding protein that is required to protect the 3'-end telomeric overhang. It binds the consensus sequence 5'-GGTTAC-3'. Regulates telomerase and telomere length.^[1] ^[2] ^[3]

Publication Abstract from PubMed

Pot1 is the protein responsible for binding to and protecting the 3' single-stranded DNA (ssDNA) overhang at most eukaryotic telomeres. Here, we present the crystal structure of one of the two oligonucleotide/oligosaccharide-binding folds (Pot1pC) that make up the ssDNA-binding domain in S. pombe Pot1. Comparison with the homologous human domain reveals unexpected structural divergence in the mode of ligand binding that explains the differing ligand requirements between species. Despite the presence of apparently base-specific hydrogen bonds, Pot1pC is able to bind a wide range of ssDNA sequences with thermodynamic equivalence. To address how Pot1pC binds ssDNA with little to no specificity, multiple structures of Pot1pC bound to noncognate ssDNA ligands were solved. These structures reveal that this promiscuity is implemented through new binding modes that thermodynamically compensate for base-substitutions through alternate stacking interactions and new H-bonding networks.

Nonspecific Recognition Is Achieved in Pot1pC through the Use of Multiple Binding Modes.,Dickey TH, McKercher MA, Wuttke DS Structure. 2012 Nov 28. pii: S0969-2126(12)00411-X. doi:, 10.1016/j.str.2012.10.015. PMID:23201273^[4]

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

References

↑ Baumann P, Cech TR. Pot1, the putative telomere end-binding protein in fission yeast and humans. Science. 2001 May 11;292(5519):1171-5. PMID:11349150 doi:https://dx.doi.org/10.1126/science.1060036
↑ Lei M, Baumann P, Cech TR. Cooperative binding of single-stranded telomeric DNA by the Pot1 protein of Schizosaccharomyces pombe. Biochemistry. 2002 Dec 10;41(49):14560-8. PMID:12463756
↑ Miyoshi T, Kanoh J, Saito M, Ishikawa F. Fission yeast Pot1-Tpp1 protects telomeres and regulates telomere length. Science. 2008 Jun 6;320(5881):1341-4. doi: 10.1126/science.1154819. PMID:18535244 doi:https://dx.doi.org/10.1126/science.1154819
↑ Dickey TH, McKercher MA, Wuttke DS. Nonspecific Recognition Is Achieved in Pot1pC through the Use of Multiple Binding Modes. Structure. 2012 Nov 28. pii: S0969-2126(12)00411-X. doi:, 10.1016/j.str.2012.10.015. PMID:23201273 doi:https://dx.doi.org/10.1016/j.str.2012.10.015

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Baumann P, Cech TR. Pot1, the putative telomere end-binding protein in fission yeast and humans. Science. 2001 May 11;292(5519):1171-5. PMID:11349150 doi:https://dx.doi.org/10.1126/science.1060036

[2] Lei M, Baumann P, Cech TR. Cooperative binding of single-stranded telomeric DNA by the Pot1 protein of Schizosaccharomyces pombe. Biochemistry. 2002 Dec 10;41(49):14560-8. PMID:12463756

[3] Miyoshi T, Kanoh J, Saito M, Ishikawa F. Fission yeast Pot1-Tpp1 protects telomeres and regulates telomere length. Science. 2008 Jun 6;320(5881):1341-4. doi: 10.1126/science.1154819. PMID:18535244 doi:https://dx.doi.org/10.1126/science.1154819

[4] Dickey TH, McKercher MA, Wuttke DS. Nonspecific Recognition Is Achieved in Pot1pC through the Use of Multiple Binding Modes. Structure. 2012 Nov 28. pii: S0969-2126(12)00411-X. doi:, 10.1016/j.str.2012.10.015. PMID:23201273 doi:https://dx.doi.org/10.1016/j.str.2012.10.015

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[2]

[3]

[4]

@@ Line 1: / Line 1: @@
 ==Crystal Structure of Schizosaccharomyces pombe Pot1pC bound to ssDNA (GGTTACGGT)==
-<StructureSection load='4hik' size='340' side='right' caption='[[4hik]], [[Resolution|resolution]] 1.64&Aring;' scene=''>
+<StructureSection load='4hik' size='340' side='right'caption='[[4hik]], [[Resolution|resolution]] 1.64&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4hik]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Fission_yeast Fission yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HIK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HIK FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4hik]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe_972h- Schizosaccharomyces pombe 972h-]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HIK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HIK FirstGlance]. <br>
-</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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]] 1.636&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4hio|4hio]], [[4him|4him]], [[4hj5|4hj5]], [[4hj7|4hj7]], [[4hj8|4hj8]], [[4hj9|4hj9]], [[4hja|4hja]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pot1, SPAC26H5.06 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=284812 Fission yeast])</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=4hik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hik OCA], [https://pdbe.org/4hik PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hik RCSB], [https://www.ebi.ac.uk/pdbsum/4hik PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hik 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=4hik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hik OCA], [http://pdbe.org/4hik PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4hik RCSB], [http://www.ebi.ac.uk/pdbsum/4hik PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4hik ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/POT1_SCHPO POT1_SCHPO]] Single-stranded telomeric DNA-binding protein that is required to protect the 3'-end telomeric overhang. It binds the consensus sequence 5'-GGTTAC-3'. Regulates telomerase and telomere length.<ref>PMID:11349150</ref> <ref>PMID:12463756</ref> <ref>PMID:18535244</ref>
+[https://www.uniprot.org/uniprot/POT1_SCHPO POT1_SCHPO] Single-stranded telomeric DNA-binding protein that is required to protect the 3'-end telomeric overhang. It binds the consensus sequence 5'-GGTTAC-3'. Regulates telomerase and telomere length.<ref>PMID:11349150</ref> <ref>PMID:12463756</ref> <ref>PMID:18535244</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 20: / Line 19: @@
 </div>
 <div class="pdbe-citations 4hik" style="background-color:#fffaf0;"></div>
-==See Also==
-*[[Selenomethionine|Selenomethionine]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Fission yeast]]
+[[Category: Large Structures]]
-[[Category: Dickey, T H]]
+[[Category: Schizosaccharomyces pombe 972h-]]
-[[Category: Wuttke, D S]]
+[[Category: Dickey TH]]
-[[Category: Dna binding protein]]
+[[Category: Wuttke DS]]
-[[Category: Ob-fold]]
-[[Category: Plasticity]]
-[[Category: Promiscuity]]
-[[Category: Single-stranded telomeric dna]]
-[[Category: Specificity]]
-[[Category: Ssdna binding]]

4hik: Difference between revisions

Latest revision as of 07:01, 27 November 2024

Crystal Structure of Schizosaccharomyces pombe Pot1pC bound to ssDNA (GGTTACGGT)

Structural highlights

Function

Publication Abstract from PubMed

References

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