2o0j - Revision history

OCA at 10:28, 30 August 2023

2023-08-30T10:28:18Z

←Older revision		Revision as of 10:28, 30 August 2023
Line 3:		Line 3:
	<StructureSection load='2o0j' size='340' side='right'caption='[[2o0j]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2o0j' size='340' side='right'caption='[[2o0j]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2o0j]] 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=2O0J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2O0J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2o0j]] 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=2O0J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2O0J FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ADP:ADENOSINE~~-~~5-DIPHOSPHATE'>ADP</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]] 1.8Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[2o0h\|2o0h]], [[2o0k\|2o0k]]~~</~~div~~>~~</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></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=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [https://pdbe.org/2o0j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [https://www.ebi.ac.uk/pdbsum/2o0j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2o0j 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=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [https://pdbe.org/2o0j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [https://www.ebi.ac.uk/pdbsum/2o0j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2o0j 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 34:		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: Hydrolase]]~~	+
-	~~[[Category: Nucleotide-binding fold~~]]	+

OCA at 15:56, 8 June 2021

2021-06-08T15:56:47Z

←Older revision		Revision as of 15:56, 8 June 2021
Line 1:		Line 1:

	==T4 gp17 ATPase domain mutant complexed with ADP==		==T4 gp17 ATPase domain mutant complexed with ADP==
-	<StructureSection load='2o0j' size='340' side='right' caption='[[2o0j]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='2o0j' size='340' side='right'caption='[[2o0j]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2o0j]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O0J OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2O0J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2o0j]] 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=2O0J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2O0J FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o0h\|2o0h]], [[2o0k\|2o0k]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2o0h\|2o0h]], [[2o0k\|2o0k]]</div></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 BPT4])</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'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [~~http~~://pdbe.org/2o0j PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2o0j PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2o0j 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=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [https://pdbe.org/2o0j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [https://www.ebi.ac.uk/pdbsum/2o0j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2o0j 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]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o0/2o0j_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o0/2o0j_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 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Bpt4]]		[[Category: Bpt4]]
		+	[[Category: Large Structures]]
	[[Category: Rossmann, M G]]		[[Category: Rossmann, M G]]
	[[Category: Sun, S]]		[[Category: Sun, S]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Nucleotide-binding fold]]		[[Category: Nucleotide-binding fold]]

OCA at 08:46, 18 October 2017

2017-10-18T08:46:41Z

←Older revision		Revision as of 08:46, 18 October 2017
Line 1:		Line 1:
		+
	==T4 gp17 ATPase domain mutant complexed with ADP==		==T4 gp17 ATPase domain mutant complexed with ADP==
	<StructureSection load='2o0j' size='340' side='right' caption='[[2o0j]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2o0j' size='340' side='right' caption='[[2o0j]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o0h\|2o0h]], [[2o0k\|2o0k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o0h\|2o0h]], [[2o0k\|2o0k]]</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 BPT4])</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 BPT4])</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=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [http://pdbe.org/2o0j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [http://www.ebi.ac.uk/pdbsum/2o0j 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=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [http://pdbe.org/2o0j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [http://www.ebi.ac.uk/pdbsum/2o0j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2o0j ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<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=2o0j ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 02:23, 12 September 2015

2015-09-12T02:23:23Z

←Older revision		Revision as of 02:23, 12 September 2015
Line 2:		Line 2:
	<StructureSection load='2o0j' size='340' side='right' caption='[[2o0j]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2o0j' size='340' side='right' caption='[[2o0j]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2o0j]] 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=2O0J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O0J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2o0j]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpt4 Bpt4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O0J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O0J FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o0h\|2o0h]], [[2o0k\|2o0k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o0h\|2o0h]], [[2o0k\|2o0k]]</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=10665 BPT4])</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=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [http://www.ebi.ac.uk/pdbsum/2o0j 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=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [http://pdbe.org/2o0j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [http://www.ebi.ac.uk/pdbsum/2o0j 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 28:		Line 28:
	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 2o0j" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Enterobacteria phage t4~~]]	+	[[Category: Bpt4]]
	[[Category: Rossmann, M G]]		[[Category: Rossmann, M G]]
	[[Category: Sun, S]]		[[Category: Sun, S]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Nucleotide-binding fold]]		[[Category: Nucleotide-binding fold]]

OCA at 22:39, 25 December 2014

2014-12-25T22:39:22Z

←Older revision		Revision as of 22:39, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2o0j]] 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=2O0J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O0J FirstGlance]. <br>		<table><tr><td colspan='2'>[[2o0j]] 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=2O0J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O0J FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o0h\|2o0h]], [[2o0k\|2o0k]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o0h\|2o0h]], [[2o0k\|2o0k]]</td></tr>
-	<tr><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=10665 Enterobacteria phage T4])</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=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [http://www.ebi.ac.uk/pdbsum/2o0j 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=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [http://www.ebi.ac.uk/pdbsum/2o0j 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]]
Line 31:		Line 33:
	</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: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Nucleotide-binding fold]]		[[Category: Nucleotide-binding fold]]

OCA at 20:08, 30 September 2014

2014-09-30T20:08:36Z

←Older revision		Revision as of 20:08, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2o0j.~~png~~\|~~left~~\|200px]]	+	==T4 gp17 ATPase domain mutant complexed with ADP==
		+	<StructureSection load='2o0j' size='340' side='right' caption='[[2o0j]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2o0j]] 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=2O0J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2O0J FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2o0h\|2o0h]], [[2o0k\|2o0k]]</td></tr>
		+	<tr><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><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2o0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o0j OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2o0j RCSB], [http://www.ebi.ac.uk/pdbsum/2o0j 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/o0/2o0j_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 ==
		+	Packaging the viral genome into empty procapsids, an essential event in the life cycle of tailed bacteriophages and some eukaryotic viruses, is a process that shares features with chromosome assembly. Most viral procapsids possess a special vertex containing a dodecameric portal protein that is used for entry and exit of the viral genome. The portal and an ATPase are parts of the genome-packaging machine. The ATPase is required to provide energy for translocation and compaction of the negative charges on the genomic DNA. Here we report the atomic structure of the ATPase component in a phage DNA-packaging machine. The bacteriophage T4 ATPase has the greatest similarity to monomeric helicases, suggesting that the genome is translocated by an inchworm mechanism. The similarity of the packaging machines in the double-stranded DNA (dsDNA) bacteriophage T4 and dsRNA bacteriophage varphi12 is consistent with the evolution of many virions from a common ancestor.

-	~~{{STRUCTURE_2o0j\| PDB=2o0j \| SCENE= }}~~	+	The structure of the ATPase that powers DNA packaging into bacteriophage T4 procapsids.,Sun S, Kondabagil K, Gentz PM, Rossmann MG, Rao VB Mol Cell. 2007 Mar 23;25(6):943-9. PMID:17386269<ref>PMID:17386269</ref>

-	~~===T4 gp17 ATPase domain mutant complexed with ADP===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17386269}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2o0j]] 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=2O0J OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:017386269<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
	[[Category: Rossmann, M G.]]		[[Category: Rossmann, M G.]]

OCA: Protected "2o0j" [edit=sysop:move=sysop]

2013-01-07T15:10:18Z

Protected "2o0j" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:10, 7 January 2013

OCA at 15:10, 7 January 2013

2013-01-07T15:10:13Z

←Older revision		Revision as of 15:10, 7 January 2013
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-	{{Seed}}
	[[Image:2o0j.png\|left\|200px]]		[[Image:2o0j.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2o0j", 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_2o0j\| PDB=2o0j \| SCENE= }}		{{STRUCTURE_2o0j\| PDB=2o0j \| SCENE= }}

	===T4 gp17 ATPase domain mutant complexed with ADP===		===T4 gp17 ATPase domain mutant complexed with ADP===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17386269}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17386269 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17386269}}		{{ABSTRACT_PUBMED_17386269}}

	==About this Structure==		==About this Structure==
-	~~2O0J~~ 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=2O0J OCA].	+	[[2o0j]] 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=2O0J OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17386269~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017386269</ref><references group="xtra"/>
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
	[[Category: Rossmann, M G.]]		[[Category: Rossmann, M G.]]
Line 29:		Line 17:
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Nucleotide-binding fold]]		[[Category: Nucleotide-binding fold]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 09:57:37 2009''

OCA at 07:57, 18 February 2009

2009-02-18T07:57:39Z

←Older revision		Revision as of 07:57, 18 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2O0J is a ~~[[Single protein]]~~ 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=2O0J OCA].	+	2O0J 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=2O0J OCA].

	==Reference==		==Reference==
-	~~The structure of the ATPase that powers DNA packaging into bacteriophage T4 procapsids., Sun S, Kondabagil K, Gentz PM, Rossmann MG, Rao VB, Mol Cell. 2007 Mar 23;25(6):943-9.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17386269 17386269]~~	+	<ref group="xtra">PMID:17386269</ref><references group="xtra"/>
	[[Category: Enterobacteria phage t4]]		[[Category: Enterobacteria phage t4]]
-	[[Category: Single protein]]
	[[Category: Rossmann, M G.]]		[[Category: Rossmann, M G.]]
	[[Category: Sun, S.]]		[[Category: Sun, S.]]
Line 31:		Line 30:
	[[Category: Nucleotide-binding fold]]		[[Category: Nucleotide-binding fold]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Tue Jul 29 16~~:19:~~06 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 09:57:37 2009''

OCA at 13:19, 29 July 2008

2008-07-29T13:19:11Z

←Older revision		Revision as of 13:19, 29 July 2008
Line 1:		Line 1:
-	[[Image:2o0j.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2o0j.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_2o0j\| PDB=2o0j \| SCENE= }}		{{STRUCTURE_2o0j\| PDB=2o0j \| SCENE= }}

-	~~'''~~T4 gp17 ATPase domain mutant complexed with ADP~~'''~~	+	===T4 gp17 ATPase domain mutant complexed with ADP===


-	~~==Overview==~~	+	<!--
-	~~Packaging the viral genome into empty procapsids~~, ~~an essential event in the life cycle of tailed bacteriophages and some eukaryotic viruses~~, ~~is a process that shares features with chromosome assembly. Most viral procapsids possess a special vertex containing a dodecameric portal protein that is used for entry and exit of~~ the ~~viral genome. The portal and an ATPase are parts of the genome-packaging machine. The ATPase is required~~ to ~~provide energy for translocation and compaction of~~ the ~~negative charges~~ on ~~the genomic DNA~~. ~~Here we report the atomic structure of the ATPase component in a phage DNA-packaging machine~~. ~~The bacteriophage T4 ATPase has the greatest similarity to monomeric helicases~~, ~~suggesting that~~ the ~~genome is translocated by an inchworm mechanism~~. ~~The similarity of the packaging machines in the double~~-~~stranded DNA (dsDNA) bacteriophage T4 and dsRNA bacteriophage varphi12 is consistent with the evolution of many virions from a common ancestor.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_17386269}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 17386269 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_17386269}}

	==About this Structure==		==About this Structure==
Line 26:		Line 30:
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Nucleotide-binding fold]]		[[Category: Nucleotide-binding fold]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Jun 5 10~~:08:14 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 16:19:06 2008''