1kxl: Difference between revisions

Latest revision as of 11:43, 22 May 2024

Solution Structure of the Cdc13 DNA-binding Domain in a Complex with Single-Stranded Telomeric DNA (DNA structure not modeled)Solution Structure of the Cdc13 DNA-binding Domain in a Complex with Single-Stranded Telomeric DNA (DNA structure not modeled)

Structural highlights

1kxl is a 1 chain structure with sequence from Saccharomyces cerevisiae. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Solution NMR
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CDC13_YEAST Single-stranded telomeric DNA-binding protein that regulates telomere replication. Has a role in both positive and negative regulation. Promotes [TG(1-3)] strand lengthening via interaction with EST1. Promotes [C(1-3)A] strand re-synthesis by DNA polymerase alpha via interaction with POL1. Negatively regulates telomere elongation of the G strand via binding with STN1 thereby inhibiting telomerase activity.^[1] ^[2] ^[3]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

The essential Cdc13 protein in the yeast Saccharomyces cerevisiae is a single-stranded telomeric DNA binding protein required for chromosome end protection and telomere replication. Here we report the solution structure of the Cdc13 DNA binding domain in complex with telomeric DNA. The structure reveals the use of a single OB (oligonucleotide/oligosaccharide binding) fold augmented by an unusually large loop for DNA recognition. This OB fold is structurally similar to OB folds found in the ciliated protozoan telomere end-binding protein, although no sequence similarity is apparent between them. The common usage of an OB fold for telomeric DNA interaction demonstrates conservation of end-protection mechanisms among eukaryotes.

Conserved structure for single-stranded telomeric DNA recognition.,Mitton-Fry RM, Anderson EM, Hughes TR, Lundblad V, Wuttke DS Science. 2002 Apr 5;296(5565):145-7. PMID:11935027^[4]

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

References

↑ Chandra A, Hughes TR, Nugent CI, Lundblad V. Cdc13 both positively and negatively regulates telomere replication. Genes Dev. 2001 Feb 15;15(4):404-14. PMID:11230149 doi:10.1101/gad.861001
↑ Meier B, Driller L, Jaklin S, Feldmann HM. New function of CDC13 in positive telomere length regulation. Mol Cell Biol. 2001 Jul;21(13):4233-45. PMID:11390652 doi:10.1128/MCB.21.13.4233-4245.2001
↑ Qi H, Zakian VA. The Saccharomyces telomere-binding protein Cdc13p interacts with both the catalytic subunit of DNA polymerase alpha and the telomerase-associated est1 protein. Genes Dev. 2000 Jul 15;14(14):1777-88. PMID:10898792
↑ Mitton-Fry RM, Anderson EM, Hughes TR, Lundblad V, Wuttke DS. Conserved structure for single-stranded telomeric DNA recognition. Science. 2002 Apr 5;296(5565):145-7. PMID:11935027 doi:10.1126/science.1068799

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OCA

[1] Chandra A, Hughes TR, Nugent CI, Lundblad V. Cdc13 both positively and negatively regulates telomere replication. Genes Dev. 2001 Feb 15;15(4):404-14. PMID:11230149 doi:10.1101/gad.861001

[2] Meier B, Driller L, Jaklin S, Feldmann HM. New function of CDC13 in positive telomere length regulation. Mol Cell Biol. 2001 Jul;21(13):4233-45. PMID:11390652 doi:10.1128/MCB.21.13.4233-4245.2001

[3] Qi H, Zakian VA. The Saccharomyces telomere-binding protein Cdc13p interacts with both the catalytic subunit of DNA polymerase alpha and the telomerase-associated est1 protein. Genes Dev. 2000 Jul 15;14(14):1777-88. PMID:10898792

[4] Mitton-Fry RM, Anderson EM, Hughes TR, Lundblad V, Wuttke DS. Conserved structure for single-stranded telomeric DNA recognition. Science. 2002 Apr 5;296(5565):145-7. PMID:11935027 doi:10.1126/science.1068799

[1]

[2]

[3]

[4]

@@ Line 1: / Line 1: @@
-{{Seed}}
-[[Image:1kxl.png|left|200px]]
-<!--
+==Solution Structure of the Cdc13 DNA-binding Domain in a Complex with Single-Stranded Telomeric DNA (DNA structure not modeled)==
-The line below this paragraph, containing "STRUCTURE_1kxl", creates the "Structure Box" on the page.
+<StructureSection load='1kxl' size='340' side='right'caption='[[1kxl]]' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1kxl]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KXL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KXL FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=1kxl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kxl OCA], [https://pdbe.org/1kxl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kxl RCSB], [https://www.ebi.ac.uk/pdbsum/1kxl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kxl ProSAT]</span></td></tr>
-{{STRUCTURE_1kxl|  PDB=1kxl  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/CDC13_YEAST CDC13_YEAST] Single-stranded telomeric DNA-binding protein that regulates telomere replication. Has a role in both positive and negative regulation. Promotes [TG(1-3)] strand lengthening via interaction with EST1. Promotes [C(1-3)A] strand re-synthesis by DNA polymerase alpha via interaction with POL1. Negatively regulates telomere elongation of the G strand via binding with STN1 thereby inhibiting telomerase activity.<ref>PMID:11230149</ref> <ref>PMID:11390652</ref> <ref>PMID:10898792</ref>
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kx/1kxl_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1kxl ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The essential Cdc13 protein in the yeast Saccharomyces cerevisiae is a single-stranded telomeric DNA binding protein required for chromosome end protection and telomere replication. Here we report the solution structure of the Cdc13 DNA binding domain in complex with telomeric DNA. The structure reveals the use of a single OB (oligonucleotide/oligosaccharide binding) fold augmented by an unusually large loop for DNA recognition. This OB fold is structurally similar to OB folds found in the ciliated protozoan telomere end-binding protein, although no sequence similarity is apparent between them. The common usage of an OB fold for telomeric DNA interaction demonstrates conservation of end-protection mechanisms among eukaryotes.
-===Solution Structure of the Cdc13 DNA-binding Domain in a Complex with Single-Stranded Telomeric DNA (DNA structure not modeled)===
+Conserved structure for single-stranded telomeric DNA recognition.,Mitton-Fry RM, Anderson EM, Hughes TR, Lundblad V, Wuttke DS Science. 2002 Apr 5;296(5565):145-7. PMID:11935027<ref>PMID:11935027</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_11935027}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1kxl" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 11935027 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_11935027}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-KXL is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KXL OCA].
-==Reference==
-Conserved structure for single-stranded telomeric DNA recognition., Mitton-Fry RM, Anderson EM, Hughes TR, Lundblad V, Wuttke DS, Science. 2002 Apr 5;296(5565):145-7. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11935027 11935027]
 [[Category: Saccharomyces cerevisiae]]
-[[Category: Single protein]]
+[[Category: Anderson EM]]
-[[Category: Anderson, E M.]]
+[[Category: Mitton-Fry RM]]
-[[Category: Mitton-Fry, R M.]]
+[[Category: Wuttke DS]]
-[[Category: Wuttke, D S.]]
-[[Category: Dna-binding domain]]
-[[Category: Ob fold]]
-[[Category: Single-stranded dna]]
-[[Category: Telomere]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul  2 11:14:17 2008''

1kxl: Difference between revisions

Latest revision as of 11:43, 22 May 2024

Solution Structure of the Cdc13 DNA-binding Domain in a Complex with Single-Stranded Telomeric DNA (DNA structure not modeled)Solution Structure of the Cdc13 DNA-binding Domain in a Complex with Single-Stranded Telomeric DNA (DNA structure not modeled)

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

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1kxl: Difference between revisions

Latest revision as of 11:43, 22 May 2024

Solution Structure of the Cdc13 DNA-binding Domain in a Complex with Single-Stranded Telomeric DNA (DNA structure not modeled)Solution Structure of the Cdc13 DNA-binding Domain in a Complex with Single-Stranded Telomeric DNA (DNA structure not modeled)

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Navigation menu

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