3cpe - Revision history

OCA at 12:31, 30 August 2023

2023-08-30T12:31:47Z

←Older revision		Revision as of 12:31, 30 August 2023
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	<StructureSection load='3cpe' size='340' side='right'caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='3cpe' size='340' side='right'caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bpt4 Bpt4~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CPE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CPE FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NA:SODIUM+ION'>NA</scene>~~, ~~<scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 2.8Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~17 ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=10665 BPT4])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [https://pdbe.org/3cpe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [https://www.ebi.ac.uk/pdbsum/3cpe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3cpe 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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [https://pdbe.org/3cpe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [https://www.ebi.ac.uk/pdbsum/3cpe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3cpe ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/TERL_BPT4 TERL_BPT4]] Component of the molecular motor that translocates genomic DNA in empty capsid during DNA packaging. Heterodimerizes with small terminase protein to be docked on capsid portal protein. The latter forms a ring in which genomic DNA in translocated into the capsid. May have or induce an endonuclease activity to cleave the genome concatemer after encapsidation (By similarity).	+	[https://www.uniprot.org/uniprot/TERL_BPT4 TERL_BPT4] Component of the molecular motor that translocates genomic DNA in empty capsid during DNA packaging. Heterodimerizes with small terminase protein to be docked on capsid portal protein. The latter forms a ring in which genomic DNA in translocated into the capsid. May have or induce an endonuclease activity to cleave the genome concatemer after encapsidation (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bpt4~~]]	+	[[Category: Escherichia virus T4]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Rossmann~~, M G~~]]	+	[[Category: Rossmann MG]]
-	[[Category: Sun, S]]	+	[[Category: Sun S]]
-	~~[[Category: Alternative initiation]]~~	+
-	~~[[Category: Atp-binding]]~~	+
-	~~[[Category: Dna-binding]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Large terminase]]~~	+
-	~~[[Category: Nuclease]]~~	+
-	~~[[Category: Nucleotide-binding~~]]	+

OCA at 19:12, 20 October 2021

2021-10-20T19:12:50Z

←Older revision		Revision as of 19:12, 20 October 2021
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	<StructureSection load='3cpe' size='340' side='right'caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='3cpe' size='340' side='right'caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3CPE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CPE FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [~~http~~://pdbe.org/3cpe PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3cpe PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3cpe ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">17 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 BPT4])</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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [https://pdbe.org/3cpe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [https://www.ebi.ac.uk/pdbsum/3cpe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3cpe ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/TERL_BPT4 TERL_BPT4]] Component of the molecular motor that translocates genomic DNA in empty capsid during DNA packaging. Heterodimerizes with small terminase protein to be docked on capsid portal protein. The latter forms a ring in which genomic DNA in translocated into the capsid. May have or induce an endonuclease activity to cleave the genome concatemer after encapsidation (By similarity).	+	[[https://www.uniprot.org/uniprot/TERL_BPT4 TERL_BPT4]] Component of the molecular motor that translocates genomic DNA in empty capsid during DNA packaging. Heterodimerizes with small terminase protein to be docked on capsid portal protein. The latter forms a ring in which genomic DNA in translocated into the capsid. May have or induce an endonuclease activity to cleave the genome concatemer after encapsidation (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bpt4]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Rossmann, M G]]		[[Category: Rossmann, M G]]

OCA at 07:59, 31 July 2019

2019-07-31T07:59:24Z

←Older revision		Revision as of 07:59, 31 July 2019
Line 1:		Line 1:

	==Crystal Structure of T4 gp17==		==Crystal Structure of T4 gp17==
-	<StructureSection load='3cpe' size='340' side='right' caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='3cpe' size='340' side='right'caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CPE FirstGlance]. <br>		<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CPE FirstGlance]. <br>
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cp/3cpe_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cp/3cpe_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>
Line 32:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Rossmann, M G]]		[[Category: Rossmann, M G]]
	[[Category: Sun, S]]		[[Category: Sun, S]]

OCA at 08:32, 25 October 2017

2017-10-25T08:32:31Z

←Older revision		Revision as of 08:32, 25 October 2017
Line 1:		Line 1:
		+
	==Crystal Structure of T4 gp17==		==Crystal Structure of T4 gp17==
	<StructureSection load='3cpe' size='340' side='right' caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='3cpe' size='340' side='right' caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_t4 Bacteriophage t4]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CPE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CPE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">17 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id= Bacteriophage T4])</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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [http://pdbe.org/3cpe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [http://www.ebi.ac.uk/pdbsum/3cpe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3cpe 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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [http://pdbe.org/3cpe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [http://www.ebi.ac.uk/pdbsum/3cpe PDBsum]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
Line 32:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacteriophage t4]]
	[[Category: Rossmann, M G]]		[[Category: Rossmann, M G]]
	[[Category: Sun, S]]		[[Category: Sun, S]]

OCA at 06:53, 9 February 2016

2016-02-09T06:53:19Z

←Older revision		Revision as of 06:53, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3cpe' size='340' side='right' caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='3cpe' size='340' side='right' caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Enterobacteria_phage_t4 Enterobacteria phage~~ t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CPE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_t4 Bacteriophage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CPE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">17 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~10665 Enterobacteria phage~~ T4])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">17 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id= Bacteriophage T4])</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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [http://www.ebi.ac.uk/pdbsum/3cpe 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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [http://pdbe.org/3cpe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [http://www.ebi.ac.uk/pdbsum/3cpe PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~VG17_BPT4 VG17_BPT4~~]] Component of the molecular motor that translocates genomic DNA in empty capsid during DNA packaging. Heterodimerizes with small terminase protein to be docked on capsid portal protein. The latter forms a ring in which genomic DNA in translocated into the capsid. May have or induce an endonuclease activity to cleave the genome concatemer after encapsidation (By similarity).	+	[[http://www.uniprot.org/uniprot/TERL_BPT4 TERL_BPT4]] Component of the molecular motor that translocates genomic DNA in empty capsid during DNA packaging. Heterodimerizes with small terminase protein to be docked on capsid portal protein. The latter forms a ring in which genomic DNA in translocated into the capsid. May have or induce an endonuclease activity to cleave the genome concatemer after encapsidation (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 17:		Line 17:
	<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=3cpe ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 3cpe" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Enterobacteria phage~~ t4]]	+	[[Category: Bacteriophage t4]]
	[[Category: Rossmann, M G]]		[[Category: Rossmann, M G]]
	[[Category: Sun, S]]		[[Category: Sun, S]]

OCA at 05:10, 25 December 2014

2014-12-25T05:10:59Z

←Older revision		Revision as of 05:10, 25 December 2014
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	<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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [http://www.ebi.ac.uk/pdbsum/3cpe 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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [http://www.ebi.ac.uk/pdbsum/3cpe PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/VG17_BPT4 VG17_BPT4]] Component of the molecular motor that translocates genomic DNA in empty capsid during DNA packaging. Heterodimerizes with small terminase protein to be docked on capsid portal protein. The latter forms a ring in which genomic DNA in translocated into the capsid. May have or induce an endonuclease activity to cleave the genome concatemer after encapsidation (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
-	[[Category: Rossmann, M G.]]	+	[[Category: Rossmann, M G]]
-	[[Category: Sun, S.]]	+	[[Category: Sun, S]]
	[[Category: Alternative initiation]]		[[Category: Alternative initiation]]
	[[Category: Atp-binding]]		[[Category: Atp-binding]]

OCA at 06:16, 10 October 2014

2014-10-10T06:16:14Z

←Older revision		Revision as of 06:16, 10 October 2014
Line 1:		Line 1:
-	[[~~Image:~~3cpe.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of T4 gp17==
		+	<StructureSection load='3cpe' size='340' side='right' caption='[[3cpe]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CPE FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">17 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10665 Enterobacteria phage T4])</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=3cpe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cpe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3cpe RCSB], [http://www.ebi.ac.uk/pdbsum/3cpe 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/cp/3cpe_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 ==
		+	Viral genomes are packaged into "procapsids" by powerful molecular motors. We report the crystal structure of the DNA packaging motor protein, gene product 17 (gp17), in bacteriophage T4. The structure consists of an N-terminal ATPase domain, which provides energy for compacting DNA, and a C-terminal nuclease domain, which terminates packaging. We show that another function of the C-terminal domain is to translocate the genome into the procapsid. The two domains are in close contact in the crystal structure, representing a "tensed state." A cryo-electron microscopy reconstruction of the T4 procapsid complexed with gp17 shows that the packaging motor is a pentamer and that the domains within each monomer are spatially separated, representing a "relaxed state." These structures suggest a mechanism, supported by mutational and other data, in which electrostatic forces drive the DNA packaging by alternating between tensed and relaxed states. Similar mechanisms may occur in other molecular motors.

-	~~{{STRUCTURE_3cpe\| PDB=3cpe \| SCENE= }}~~	+	The structure of the phage T4 DNA packaging motor suggests a mechanism dependent on electrostatic forces.,Sun S, Kondabagil K, Draper B, Alam TI, Bowman VD, Zhang Z, Hegde S, Fokine A, Rossmann MG, Rao VB Cell. 2008 Dec 26;135(7):1251-62. PMID:19109896<ref>PMID:19109896</ref>

-	~~===Crystal Structure~~ of ~~T4 gp17===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19109896}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[3cpe]] is a 1 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA].~~	+	</StructureSection>
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
	[[Category: Rossmann, M G.]]		[[Category: Rossmann, M G.]]

OCA: Protected "3cpe" [edit=sysop:move=sysop]

2013-01-07T21:07:49Z

Protected "3cpe" [edit=sysop:move=sysop]

←Older revision

Revision as of 21:07, 7 January 2013

OCA at 21:07, 7 January 2013

2013-01-07T21:07:44Z

←Older revision		Revision as of 21:07, 7 January 2013
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-	~~{{Seed}}~~	+	[[Image:3cpe.png\|left\|200px]]
-	[[Image:3cpe.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3cpe", 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_3cpe\| PDB=3cpe \| SCENE= }}		{{STRUCTURE_3cpe\| PDB=3cpe \| SCENE= }}

	===Crystal Structure of T4 gp17===		===Crystal Structure of T4 gp17===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19109896}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19109896 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_19109896}}		{{ABSTRACT_PUBMED_19109896}}

	==About this Structure==		==About this Structure==
-	~~3CPE~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA].	+	[[3cpe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA].
-		+
-	~~==Reference==~~	+
-	The structure of the phage T4 DNA packaging motor suggests a mechanism dependent on electrostatic forces., Sun S, Kondabagil K, Draper B, Alam TI, Bowman VD, Zhang Z, Hegde S, Fokine A, Rossmann MG, Rao VB, Cell. 2008 Dec 26;135(7):1251-62. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/19109896 19109896]	+
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
	[[Category: Rossmann, M G.]]		[[Category: Rossmann, M G.]]
Line 34:		Line 19:
	[[Category: Nuclease]]		[[Category: Nuclease]]
	[[Category: Nucleotide-binding]]		[[Category: Nucleotide-binding]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 14 13:13:09 2009''

OCA at 11:13, 14 January 2009

2009-01-14T11:13:10Z

←Older revision		Revision as of 11:13, 14 January 2009
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-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3cpe.jpg\|left\|200px]]

-	The ~~entry 3cpe~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3cpe", 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_3cpe\| PDB=3cpe \| SCENE= }}

-	~~Authors: Sun, S., Kondabagil, K., Draper, B., Alam, T.I., D Bowman, V., Zhang, Z., Hegde, S., Fokine, A., Rossmann, M.G., Rao, V.B.~~	+	===Crystal Structure of T4 gp17===

-	Description: Crystal Structure of T4 gp17

		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19109896}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19109896 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19109896}}

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jun 11 09~~:33:~~14 2008~~''	+	==About this Structure==
		+	3CPE is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CPE OCA].
		+
		+	==Reference==
		+	The structure of the phage T4 DNA packaging motor suggests a mechanism dependent on electrostatic forces., Sun S, Kondabagil K, Draper B, Alam TI, Bowman VD, Zhang Z, Hegde S, Fokine A, Rossmann MG, Rao VB, Cell. 2008 Dec 26;135(7):1251-62. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/19109896 19109896]
		+	[[Category: Enterobacteria phage t4]]
		+	[[Category: Rossmann, M G.]]
		+	[[Category: Sun, S.]]
		+	[[Category: Alternative initiation]]
		+	[[Category: Atp-binding]]
		+	[[Category: Dna-binding]]
		+	[[Category: Hydrolase]]
		+	[[Category: Large terminase]]
		+	[[Category: Nuclease]]
		+	[[Category: Nucleotide-binding]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 14 13:13:09 2009''