1ph5 - Revision history

OCA at 08:08, 14 February 2024

OCA — Wed, 14 Feb 2024 08:08:04 GMT

←Older revision		Revision as of 08:08, 14 February 2024
Line 3:		Line 3:
	<StructureSection load='1ph5' size='340' side='right'caption='[[1ph5]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1ph5' size='340' side='right'caption='[[1ph5]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ph5]] is a 5 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Ciliate Ciliate~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1PH5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ph5]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Sterkiella_nova Sterkiella nova]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PH5 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>~~, ~~<scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 2.3Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td>~~<td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1otc\|1otc]]~~, ~~[[1jb7\|1jb7]], [[1kix\|1kix]], [[1k8g\|1k8g]], [[1pa6\|1pa6]], [[1ph1\|1ph1]], [[1ph2\|1ph2]], [[1ph3\|1ph3]], [[1ph4\|1ph4]], [[1ph6\|1ph6]], [[1ph7\|1ph7]], [[1ph8\|1ph8]], [[1ph9\|1ph9]], [[1phj\|1phj]]~~<~~/div></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=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [https://pdbe.org/1ph5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [https://www.ebi.ac.uk/pdbsum/1ph5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ph5 ProSAT]</span></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td><td class="sblockDat">MAC-56A AND MAC-56K AND MAC-56S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate]), MAC-41A AND MAC-41S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate])</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=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [~~http~~://pdbe.org/1ph5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1ph5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1ph5 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/TEBB_OXYNO TEBB_OXYNO]] May function as protective capping of the single-stranded telomeric overhang. May also participate in telomere length regulation during DNA replication. Binds specifically to the T4G4-containing extension on the 3'strand and protects this region of the telomere from nuclease digestion and chemical modification. [[http://www.uniprot.org/uniprot/TEBA_OXYNO TEBA_OXYNO]] May function as protective capping of the single-stranded telomeric overhang. May also participate in telomere length regulation during DNA replication. Binds specifically to the T4G4-containing extension on the 3'strand and protects this region of the telomere from nuclease digestion and chemical modification.	+	[https://www.uniprot.org/uniprot/TEBA_STENO TEBA_STENO] May function as protective capping of the single-stranded telomeric overhang. May also participate in telomere length regulation during DNA replication. Binds specifically to the T4G4-containing extension on the 3'strand and protects this region of the telomere from nuclease digestion and chemical modification.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 22:		Line 20:
	</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=1ph5 ConSurf].		</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=1ph5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Sequence-specific protein recognition of single-stranded nucleic acids is critical for many fundamental cellular processes, such as DNA replication, DNA repair, transcription, translation, recombination, apoptosis and telomere maintenance. To explore the mechanisms of sequence-specific ssDNA recognition, we determined the crystal structures of 10 different non-cognate ssDNAs complexed with the Oxytricha nova telomere end-binding protein (OnTEBP) and evaluated their corresponding binding affinities (PDB ID codes 1PH1-1PH9 and 1PHJ). The thermodynamic and structural effects of these sequence perturbations could not have been predicted based solely upon the cognate structure. OnTEBP accommodates non-cognate nucleotides by both subtle adjustments and surprisingly large structural rearrangements in the ssDNA. In two complexes containing ssDNA intermediates that occur during telomere extension by telomerase, entire nucleotides are expelled from the complex. Concurrently, the sequence register of the ssDNA shifts to re-establish a more cognate-like pattern. This phenomenon, termed nucleotide shuffling, may be of general importance in protein recognition of single-stranded nucleic acids. This set of structural and thermodynamic data highlights a fundamental difference between protein recognition of ssDNA versus dsDNA.

-	~~Nucleotide shuffling and ssDNA recognition in Oxytricha nova telomere end-binding protein complexes.,Theobald DL, Schultz SC EMBO J. 2003 Aug 15;22(16):4314-24. PMID:12912928<ref>PMID:12912928</ref>~~	+	==See Also==
-		+	*[[End-binding protein\|End-binding protein]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 1ph5" style~~=~~"background-color:#fffaf0;"></div>~~	+
-	~~== References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Ciliate]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Schultz, S C~~]]	+	[[Category: Sterkiella nova]]
-	[[Category: ~~Theobald, D L~~]]	+	[[Category: Schultz SC]]
-	[[Category: ~~Dna binding protein-dna complex]]~~	+	[[Category: Theobald DL]]
-	~~[[Category: Noncognate]]~~	+
-	~~[[Category: Ob fold]]~~	+
-	~~[[Category: Oligonucleotide and oligosaccharide binding fold]]~~	+
-	~~[[Category: Protein dna interaction]]~~	+
-	~~[[Category: Protein/dna]]~~	+
-	~~[[Category: Sequence specificity]]~~	+
-	~~[[Category: Single strand dna binding protein]]~~	+
-	~~[[Category: Telomere~~]]	+

OCA at 07:29, 9 December 2020

OCA — Wed, 09 Dec 2020 07:29:46 GMT

←Older revision		Revision as of 07:29, 9 December 2020
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG(3DR)GG==		==CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG(3DR)GG==
-	<StructureSection load='1ph5' size='340' side='right' caption='[[1ph5]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='1ph5' size='340' side='right'caption='[[1ph5]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ph5]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Ciliate Ciliate]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1PH5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ph5]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Ciliate Ciliate]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1PH5 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1otc\|1otc]], [[1jb7\|1jb7]], [[1kix\|1kix]], [[1k8g\|1k8g]], [[1pa6\|1pa6]], [[1ph1\|1ph1]], [[1ph2\|1ph2]], [[1ph3\|1ph3]], [[1ph4\|1ph4]], [[1ph6\|1ph6]], [[1ph7\|1ph7]], [[1ph8\|1ph8]], [[1ph9\|1ph9]], [[1phj\|1phj]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1otc\|1otc]], [[1jb7\|1jb7]], [[1kix\|1kix]], [[1k8g\|1k8g]], [[1pa6\|1pa6]], [[1ph1\|1ph1]], [[1ph2\|1ph2]], [[1ph3\|1ph3]], [[1ph4\|1ph4]], [[1ph6\|1ph6]], [[1ph7\|1ph7]], [[1ph8\|1ph8]], [[1ph9\|1ph9]], [[1phj\|1phj]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAC-56A AND MAC-56K AND MAC-56S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate]), MAC-41A AND MAC-41S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAC-56A AND MAC-56K AND MAC-56S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate]), MAC-41A AND MAC-41S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate])</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=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [http://pdbe.org/1ph5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ph5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ph5 ProSAT]</span></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=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [http://pdbe.org/1ph5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ph5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ph5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Ciliate]]		[[Category: Ciliate]]
		+	[[Category: Large Structures]]
	[[Category: Schultz, S C]]		[[Category: Schultz, S C]]
	[[Category: Theobald, D L]]		[[Category: Theobald, D L]]

OCA at 08:03, 15 February 2018

OCA — Thu, 15 Feb 2018 08:03:34 GMT

←Older revision		Revision as of 08:03, 15 February 2018
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG(3DR)GG==		==CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG(3DR)GG==
	<StructureSection load='1ph5' size='340' side='right' caption='[[1ph5]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1ph5' size='340' side='right' caption='[[1ph5]], [[Resolution\|resolution]] 2.30Å' scene=''>
Line 7:		Line 8:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1otc\|1otc]], [[1jb7\|1jb7]], [[1kix\|1kix]], [[1k8g\|1k8g]], [[1pa6\|1pa6]], [[1ph1\|1ph1]], [[1ph2\|1ph2]], [[1ph3\|1ph3]], [[1ph4\|1ph4]], [[1ph6\|1ph6]], [[1ph7\|1ph7]], [[1ph8\|1ph8]], [[1ph9\|1ph9]], [[1phj\|1phj]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1otc\|1otc]], [[1jb7\|1jb7]], [[1kix\|1kix]], [[1k8g\|1k8g]], [[1pa6\|1pa6]], [[1ph1\|1ph1]], [[1ph2\|1ph2]], [[1ph3\|1ph3]], [[1ph4\|1ph4]], [[1ph6\|1ph6]], [[1ph7\|1ph7]], [[1ph8\|1ph8]], [[1ph9\|1ph9]], [[1phj\|1phj]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAC-56A AND MAC-56K AND MAC-56S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate]), MAC-41A AND MAC-41S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAC-56A AND MAC-56K AND MAC-56S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate]), MAC-41A AND MAC-41S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate])</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=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [http://pdbe.org/1ph5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ph5 PDBsum]</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=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [http://pdbe.org/1ph5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ph5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ph5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ph/1ph5_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ph/1ph5_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</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/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</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=1ph5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 11:06, 11 September 2015

OCA — Fri, 11 Sep 2015 11:06:23 GMT

←Older revision		Revision as of 11:06, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1ph5' size='340' side='right' caption='[[1ph5]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1ph5' size='340' side='right' caption='[[1ph5]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ph5]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Sterkiella_nova Sterkiella nova~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PH5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ph5]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Ciliate Ciliate]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PH5 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1otc\|1otc]], [[1jb7\|1jb7]], [[1kix\|1kix]], [[1k8g\|1k8g]], [[1pa6\|1pa6]], [[1ph1\|1ph1]], [[1ph2\|1ph2]], [[1ph3\|1ph3]], [[1ph4\|1ph4]], [[1ph6\|1ph6]], [[1ph7\|1ph7]], [[1ph8\|1ph8]], [[1ph9\|1ph9]], [[1phj\|1phj]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1otc\|1otc]], [[1jb7\|1jb7]], [[1kix\|1kix]], [[1k8g\|1k8g]], [[1pa6\|1pa6]], [[1ph1\|1ph1]], [[1ph2\|1ph2]], [[1ph3\|1ph3]], [[1ph4\|1ph4]], [[1ph6\|1ph6]], [[1ph7\|1ph7]], [[1ph8\|1ph8]], [[1ph9\|1ph9]], [[1phj\|1phj]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAC-56A AND MAC-56K AND MAC-56S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 ~~Sterkiella nova~~]), MAC-41A AND MAC-41S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 ~~Sterkiella nova~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAC-56A AND MAC-56K AND MAC-56S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate]), MAC-41A AND MAC-41S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Ciliate])</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=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ph5 PDBsum]</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=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [http://pdbe.org/1ph5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ph5 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 29:		Line 29:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1ph5" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Sterkiella nova~~]]	+	[[Category: Ciliate]]
	[[Category: Schultz, S C]]		[[Category: Schultz, S C]]
	[[Category: Theobald, D L]]		[[Category: Theobald, D L]]

OCA at 15:36, 25 December 2014

OCA — Thu, 25 Dec 2014 15:36:43 GMT

←Older revision		Revision as of 15:36, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ph5]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Sterkiella_nova Sterkiella nova]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PH5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ph5]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Sterkiella_nova Sterkiella nova]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PH5 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1otc\|1otc]], [[1jb7\|1jb7]], [[1kix\|1kix]], [[1k8g\|1k8g]], [[1pa6\|1pa6]], [[1ph1\|1ph1]], [[1ph2\|1ph2]], [[1ph3\|1ph3]], [[1ph4\|1ph4]], [[1ph6\|1ph6]], [[1ph7\|1ph7]], [[1ph8\|1ph8]], [[1ph9\|1ph9]], [[1phj\|1phj]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1otc\|1otc]], [[1jb7\|1jb7]], [[1kix\|1kix]], [[1k8g\|1k8g]], [[1pa6\|1pa6]], [[1ph1\|1ph1]], [[1ph2\|1ph2]], [[1ph3\|1ph3]], [[1ph4\|1ph4]], [[1ph6\|1ph6]], [[1ph7\|1ph7]], [[1ph8\|1ph8]], [[1ph9\|1ph9]], [[1phj\|1phj]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAC-56A AND MAC-56K AND MAC-56S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Sterkiella nova]), MAC-41A AND MAC-41S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Sterkiella nova])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAC-56A AND MAC-56K AND MAC-56S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Sterkiella nova]), MAC-41A AND MAC-41S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Sterkiella nova])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ph5 PDBsum]</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=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ph5 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TEBB_OXYNO TEBB_OXYNO]] May function as protective capping of the single-stranded telomeric overhang. May also participate in telomere length regulation during DNA replication. Binds specifically to the T4G4-containing extension on the 3'strand and protects this region of the telomere from nuclease digestion and chemical modification. [[http://www.uniprot.org/uniprot/TEBA_OXYNO TEBA_OXYNO]] May function as protective capping of the single-stranded telomeric overhang. May also participate in telomere length regulation during DNA replication. Binds specifically to the T4G4-containing extension on the 3'strand and protects this region of the telomere from nuclease digestion and chemical modification.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Sterkiella nova]]		[[Category: Sterkiella nova]]
-	[[Category: Schultz, S C.]]	+	[[Category: Schultz, S C]]
-	[[Category: Theobald, D L.]]	+	[[Category: Theobald, D L]]
	[[Category: Dna binding protein-dna complex]]		[[Category: Dna binding protein-dna complex]]
	[[Category: Noncognate]]		[[Category: Noncognate]]

OCA at 20:00, 28 September 2014

OCA — Sun, 28 Sep 2014 20:00:47 GMT

←Older revision		Revision as of 20:00, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1ph5.~~png~~\|~~left~~\|200px]]	+	==CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG(3DR)GG==
		+	<StructureSection load='1ph5' size='340' side='right' caption='[[1ph5]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1ph5]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Sterkiella_nova Sterkiella nova]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1PH5 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1otc\|1otc]], [[1jb7\|1jb7]], [[1kix\|1kix]], [[1k8g\|1k8g]], [[1pa6\|1pa6]], [[1ph1\|1ph1]], [[1ph2\|1ph2]], [[1ph3\|1ph3]], [[1ph4\|1ph4]], [[1ph6\|1ph6]], [[1ph7\|1ph7]], [[1ph8\|1ph8]], [[1ph9\|1ph9]], [[1phj\|1phj]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAC-56A AND MAC-56K AND MAC-56S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Sterkiella nova]), MAC-41A AND MAC-41S ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=200597 Sterkiella nova])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ph5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ph5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ph5 RCSB], [http://www.ebi.ac.uk/pdbsum/1ph5 PDBsum]</span></td></tr>
		+	<table>
		+	== 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/ph/1ph5_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/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Sequence-specific protein recognition of single-stranded nucleic acids is critical for many fundamental cellular processes, such as DNA replication, DNA repair, transcription, translation, recombination, apoptosis and telomere maintenance. To explore the mechanisms of sequence-specific ssDNA recognition, we determined the crystal structures of 10 different non-cognate ssDNAs complexed with the Oxytricha nova telomere end-binding protein (OnTEBP) and evaluated their corresponding binding affinities (PDB ID codes 1PH1-1PH9 and 1PHJ). The thermodynamic and structural effects of these sequence perturbations could not have been predicted based solely upon the cognate structure. OnTEBP accommodates non-cognate nucleotides by both subtle adjustments and surprisingly large structural rearrangements in the ssDNA. In two complexes containing ssDNA intermediates that occur during telomere extension by telomerase, entire nucleotides are expelled from the complex. Concurrently, the sequence register of the ssDNA shifts to re-establish a more cognate-like pattern. This phenomenon, termed nucleotide shuffling, may be of general importance in protein recognition of single-stranded nucleic acids. This set of structural and thermodynamic data highlights a fundamental difference between protein recognition of ssDNA versus dsDNA.

-	~~{{STRUCTURE_1ph5\| PDB=1ph5 \| SCENE= }}~~	+	Nucleotide shuffling and ssDNA recognition in Oxytricha nova telomere end-binding protein complexes.,Theobald DL, Schultz SC EMBO J. 2003 Aug 15;22(16):4314-24. PMID:12912928<ref>PMID:12912928</ref>

-	~~===CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG(3DR)GG===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12912928}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1ph5]] is~~ a ~~5 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Sterkiella_nova Sterkiella nova]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:012912928<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Sterkiella nova]]		[[Category: Sterkiella nova]]
	[[Category: Schultz, S C.]]		[[Category: Schultz, S C.]]

OCA: Protected "1ph5" [edit=sysop:move=sysop]

OCA — Wed, 19 Dec 2012 12:12:33 GMT

Protected "1ph5" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:12, 19 December 2012

OCA at 12:12, 19 December 2012

OCA — Wed, 19 Dec 2012 12:12:31 GMT

←Older revision		Revision as of 12:12, 19 December 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1ph5.png\|left\|200px]]		[[Image:1ph5.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1ph5", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_1ph5\| PDB=1ph5 \| SCENE= }}		{{STRUCTURE_1ph5\| PDB=1ph5 \| SCENE= }}

	===CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG(3DR)GG===		===CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG(3DR)GG===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12912928}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12912928 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_12912928}}		{{ABSTRACT_PUBMED_12912928}}

	==About this Structure==		==About this Structure==
-	~~1PH5~~ is a 5 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Sterkiella_nova Sterkiella nova]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA].	+	[[1ph5]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Sterkiella_nova Sterkiella nova]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12912928~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012912928</ref><references group="xtra"/>
	[[Category: Sterkiella nova]]		[[Category: Sterkiella nova]]
	[[Category: Schultz, S C.]]		[[Category: Schultz, S C.]]
	[[Category: Theobald, D L.]]		[[Category: Theobald, D L.]]
		+	[[Category: Dna binding protein-dna complex]]
	[[Category: Noncognate]]		[[Category: Noncognate]]
	[[Category: Ob fold]]		[[Category: Ob fold]]
Line 35:		Line 24:
	[[Category: Single strand dna binding protein]]		[[Category: Single strand dna binding protein]]
	[[Category: Telomere]]		[[Category: Telomere]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 20:37:00 2009''

OCA at 18:37, 17 February 2009

OCA — Tue, 17 Feb 2009 18:37:01 GMT

←Older revision		Revision as of 18:37, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1PH5 is a ~~[[Protein complex]]~~ structure of sequences from [http://en.wikipedia.org/wiki/Sterkiella_nova Sterkiella nova]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA].	+	1PH5 is a 5 chains structure of sequences from [http://en.wikipedia.org/wiki/Sterkiella_nova Sterkiella nova]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PH5 OCA].

	==Reference==		==Reference==
-	~~Nucleotide shuffling and ssDNA recognition in Oxytricha nova telomere end-binding protein complexes., Theobald DL, Schultz SC, EMBO J. 2003 Aug 15;22(16):4314-24.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/12912928 12912928]~~	+	<ref group="xtra">PMID:12912928</ref><references group="xtra"/>
-	~~[[Category: Protein complex]]~~	+
	[[Category: Sterkiella nova]]		[[Category: Sterkiella nova]]
	[[Category: Schultz, S C.]]		[[Category: Schultz, S C.]]
Line 37:		Line 36:
	[[Category: Telomere]]		[[Category: Telomere]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 04~~:30:~~13 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 20:37:00 2009''

OCA at 01:30, 29 July 2008

OCA — Tue, 29 Jul 2008 01:30:34 GMT

←Older revision		Revision as of 01:30, 29 July 2008
Line 1:		Line 1:
-	[[Image:1ph5.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1ph5.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_1ph5\| PDB=1ph5 \| SCENE= }}		{{STRUCTURE_1ph5\| PDB=1ph5 \| SCENE= }}

-	~~'''~~CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG(3DR)GG~~'''~~	+	===CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GGGGTTTTG(3DR)GG===


-	~~==Overview==~~	+	<!--
-	~~Sequence~~-~~specific protein recognition of single~~-~~stranded nucleic acids is critical for many fundamental cellular processes~~, ~~such as DNA replication~~, ~~DNA repair, transcription, translation, recombination, apoptosis and telomere maintenance. To explore~~ the ~~mechanisms of sequence-specific ssDNA recognition, we determined~~ the ~~crystal structures of 10 different non-cognate ssDNAs complexed with the Oxytricha nova telomere end-binding protein~~ (~~OnTEBP) and evaluated their corresponding binding affinities (PDB ID codes 1PH1-1PH9 and 1PHJ)~~. ~~The thermodynamic and structural effects of these sequence perturbations could not have been predicted based solely upon the cognate structure~~. OnTEBP accommodates non-cognate nucleotides by both subtle adjustments and surprisingly large structural rearrangements in the ssDNA. In two complexes containing ssDNA intermediates that occur during telomere extension by telomerase, ~~entire nucleotides are expelled from~~ the ~~complex~~. ~~Concurrently, the sequence register of the ssDNA shifts to re~~-~~establish a more cognate~~-like pattern. This phenomenon, termed nucleotide shuffling, may be of general importance in protein recognition of single-stranded nucleic acids. This set of structural and thermodynamic data highlights a fundamental difference between protein recognition of ssDNA versus dsDNA.	+	The line below this paragraph, {{ABSTRACT_PUBMED_12912928}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 12912928 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_12912928}}

	==About this Structure==		==About this Structure==
Line 32:		Line 36:
	[[Category: Single strand dna binding protein]]		[[Category: Single strand dna binding protein]]
	[[Category: Telomere]]		[[Category: Telomere]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 05~~:05:02 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 04:30:13 2008''