3ct5 - Revision history

OCA at 09:38, 21 February 2024

OCA — Wed, 21 Feb 2024 09:38:16 GMT

←Older revision		Revision as of 09:38, 21 February 2024
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	<StructureSection load='3ct5' size='340' side='right'caption='[[3ct5]], [[Resolution\|resolution]] 1.37Å' scene=''>		<StructureSection load='3ct5' size='340' side='right'caption='[[3ct5]], [[Resolution\|resolution]] 1.37Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ct5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Bacteriophage_phi-29 Bacteriophage phi-29~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CT5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ct5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_phage_phi29 Bacillus phage phi29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CT5 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NAG:N~~-~~ACETYL-D-GLUCOSAMINE'>NAG</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]] 1.37Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[3csq\|3csq]], [[3csr\|3csr]], [[3csz\|3csz]], [[3ct0\|3ct0]], [[3ct1\|3ct1]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PRD_900017:triacetyl-beta-chitotriose'>PRD_900017</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">13 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10756 Bacteriophage phi-29])~~</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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [https://pdbe.org/3ct5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [https://www.ebi.ac.uk/pdbsum/3ct5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ct5 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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [https://pdbe.org/3ct5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [https://www.ebi.ac.uk/pdbsum/3ct5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ct5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~VG13_BPPH2 VG13_BPPH2~~]~~] Essential for tail assembly~~ and the ~~production of infectious particles. Degrades the peptidoglycan layer of~~ the host cell wall and thereby ~~facilitates infection of~~ host bacteria. Acts probably as multifunctional enzyme that degrades N-acetylglucosamine polymers (in vitro) and cleaves the peptide cross-links of the host cell wall ~~(Probable)~~.<ref>PMID:18394643</ref> <ref>PMID:18606992</ref>	+	[https://www.uniprot.org/uniprot/GP13_BPPH2 GP13_BPPH2] May serve as a plug to restrain the highly pressurized packaged genome and thus would be the first virion protein to contact the host cell wall, degrading the peptidoglycan layer and thereby facilitating viral genome entry into the host bacteria. Acts probably as a multifunctional enzyme that degrades N-acetylglucosamine polymers (in vitro) and cleaves the peptide cross-links of the host cell wall. Essential for the tail assembly.<ref>PMID:18394643</ref> <ref>PMID:18606992</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=3ct5 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=3ct5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The small bacteriophage phi29 must penetrate the approximately 250-A thick external peptidoglycan cell wall and cell membrane of the Gram-positive Bacillus subtilis, before ejecting its dsDNA genome through its tail into the bacterial cytoplasm. The tail of bacteriophage phi29 is noncontractile and approximately 380 A long. A 1.8-A resolution crystal structure of gene product 13 (gp13) shows that this tail protein has spatially well separated N- and C-terminal domains, whose structures resemble lysozyme-like enzymes and metallo-endopeptidases, respectively. CryoEM reconstructions of the WT bacteriophage and mutant bacteriophages missing some or most of gp13 shows that this enzyme is located at the distal end of the phi29 tail knob. This finding suggests that gp13 functions as a tail-associated, peptidoglycan-degrading enzyme able to cleave both the polysaccharide backbone and peptide cross-links of the peptidoglycan cell wall. Comparisons of the gp13(-) mutants with the phi29 mature and emptied phage structures suggest the sequence of events that occur during the penetration of the tail through the peptidoglycan layer.
-
-	Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail.,Xiang Y, Morais MC, Cohen DN, Bowman VD, Anderson DL, Rossmann MG Proc Natl Acad Sci U S A. 2008 Jul 15;105(28):9552-7. Epub 2008 Jul 7. PMID:18606992<ref>PMID:18606992</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3ct5" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacteriophage phi-29~~]]	+	[[Category: Bacillus phage phi29]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Rossmann~~, M G~~]]	+	[[Category: Rossmann MG]]
-	[[Category: Xiang, Y]]	+	[[Category: Xiang Y]]
-	~~[[Category: Cell wall]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Infection]]~~	+
-	~~[[Category: Late protein]]~~	+
-	~~[[Category: Phi29~~]]	+

OCA at 07:44, 2 February 2022

OCA — Wed, 02 Feb 2022 07:44:04 GMT

←Older revision		Revision as of 07:44, 2 February 2022
Line 1:		Line 1:

	==Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail==		==Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail==
-	<StructureSection load='3ct5' size='340' side='right' caption='[[3ct5]], [[Resolution\|resolution]] 1.37Å' scene=''>	+	<StructureSection load='3ct5' size='340' side='right'caption='[[3ct5]], [[Resolution\|resolution]] 1.37Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ct5]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bacteriophage_phi-29 Bacteriophage phi-29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3CT5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ct5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteriophage_phi-29 Bacteriophage phi-29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CT5 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3csq\|3csq]], [[3csr\|3csr]], [[3csz\|3csz]], [[3ct0\|3ct0]], [[3ct1\|3ct1]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3csq\|3csq]], [[3csr\|3csr]], [[3csz\|3csz]], [[3ct0\|3ct0]], [[3ct1\|3ct1]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">13 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10756 Bacteriophage phi-29])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">13 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10756 Bacteriophage phi-29])</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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [~~http~~://pdbe.org/3ct5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3ct5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3ct5 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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [https://pdbe.org/3ct5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [https://www.ebi.ac.uk/pdbsum/3ct5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ct5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/VG13_BPPH2 VG13_BPPH2]] Essential for tail assembly and the production of infectious particles. Degrades the peptidoglycan layer of the host cell wall and thereby facilitates infection of host bacteria. Acts probably as multifunctional enzyme that degrades N-acetylglucosamine polymers (in vitro) and cleaves the peptide cross-links of the host cell wall (Probable).<ref>PMID:18394643</ref> <ref>PMID:18606992</ref>	+	[[https://www.uniprot.org/uniprot/VG13_BPPH2 VG13_BPPH2]] Essential for tail assembly and the production of infectious particles. Degrades the peptidoglycan layer of the host cell wall and thereby facilitates infection of host bacteria. Acts probably as multifunctional enzyme that degrades N-acetylglucosamine polymers (in vitro) and cleaves the peptide cross-links of the host cell wall (Probable).<ref>PMID:18394643</ref> <ref>PMID:18606992</ref>
	== 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/ct/3ct5_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ct/3ct5_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: Bacteriophage phi-29]]		[[Category: Bacteriophage phi-29]]
		+	[[Category: Large Structures]]
	[[Category: Rossmann, M G]]		[[Category: Rossmann, M G]]
	[[Category: Xiang, Y]]		[[Category: Xiang, Y]]

OCA at 08:34, 25 October 2017

OCA — Wed, 25 Oct 2017 08:34:33 GMT

←Older revision		Revision as of 08:34, 25 October 2017
Line 1:		Line 1:
		+
	==Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail==		==Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail==
	<StructureSection load='3ct5' size='340' side='right' caption='[[3ct5]], [[Resolution\|resolution]] 1.37Å' scene=''>		<StructureSection load='3ct5' size='340' side='right' caption='[[3ct5]], [[Resolution\|resolution]] 1.37Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3csq\|3csq]], [[3csr\|3csr]], [[3csz\|3csz]], [[3ct0\|3ct0]], [[3ct1\|3ct1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3csq\|3csq]], [[3csr\|3csr]], [[3csz\|3csz]], [[3ct0\|3ct0]], [[3ct1\|3ct1]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">13 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id= Bacteriophage phi-29])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">13 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10756 Bacteriophage phi-29])</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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [http://pdbe.org/3ct5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ct5 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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [http://pdbe.org/3ct5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ct5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ct5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 01:12, 10 February 2016

OCA — Wed, 10 Feb 2016 01:12:56 GMT

←Older revision		Revision as of 01:12, 10 February 2016
Line 2:		Line 2:
	<StructureSection load='3ct5' size='340' side='right' caption='[[3ct5]], [[Resolution\|resolution]] 1.37Å' scene=''>		<StructureSection load='3ct5' size='340' side='right' caption='[[3ct5]], [[Resolution\|resolution]] 1.37Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ct5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bacillus_phage_phi29 Bacillus phage phi29~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CT5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ct5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_phi-29 Bacteriophage phi-29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CT5 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3csq\|3csq]], [[3csr\|3csr]], [[3csz\|3csz]], [[3ct0\|3ct0]], [[3ct1\|3ct1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3csq\|3csq]], [[3csr\|3csr]], [[3csz\|3csz]], [[3ct0\|3ct0]], [[3ct1\|3ct1]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">13 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~10756 Bacillus phage phi29~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">13 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id= Bacteriophage phi-29])</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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ct5 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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [http://pdbe.org/3ct5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ct5 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 18:
	<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=3ct5 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 3ct5" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus phage phi29~~]]	+	[[Category: Bacteriophage phi-29]]
	[[Category: Rossmann, M G]]		[[Category: Rossmann, M G]]
	[[Category: Xiang, Y]]		[[Category: Xiang, Y]]

OCA at 10:45, 25 December 2014

OCA — Thu, 25 Dec 2014 10:45:24 GMT

←Older revision		Revision as of 10:45, 25 December 2014
Line 8:		Line 8:
	<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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ct5 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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ct5 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/VG13_BPPH2 VG13_BPPH2]] Essential for tail assembly and the production of infectious particles. Degrades the peptidoglycan layer of the host cell wall and thereby facilitates infection of host bacteria. Acts probably as multifunctional enzyme that degrades N-acetylglucosamine polymers (in vitro) and cleaves the peptide cross-links of the host cell wall (Probable).<ref>PMID:18394643</ref> <ref>PMID:18606992</ref>
	== 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: Bacillus phage phi29]]		[[Category: Bacillus phage phi29]]
-	[[Category: Rossmann, M G.]]	+	[[Category: Rossmann, M G]]
-	[[Category: Xiang, Y.]]	+	[[Category: Xiang, Y]]
	[[Category: Cell wall]]		[[Category: Cell wall]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 06:29, 10 October 2014

OCA — Fri, 10 Oct 2014 06:29:22 GMT

←Older revision		Revision as of 06:29, 10 October 2014
Line 1:		Line 1:
-	[[~~Image:~~3ct5.~~png~~\|~~left~~\|200px]]	+	==Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail==
		+	<StructureSection load='3ct5' size='340' side='right' caption='[[3ct5]], [[Resolution\|resolution]] 1.37Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3ct5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_phi29 Bacillus phage phi29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CT5 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3csq\|3csq]], [[3csr\|3csr]], [[3csz\|3csz]], [[3ct0\|3ct0]], [[3ct1\|3ct1]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">13 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10756 Bacillus phage phi29])</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=3ct5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ct5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ct5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ct5 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/ct/3ct5_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 ==
		+	The small bacteriophage phi29 must penetrate the approximately 250-A thick external peptidoglycan cell wall and cell membrane of the Gram-positive Bacillus subtilis, before ejecting its dsDNA genome through its tail into the bacterial cytoplasm. The tail of bacteriophage phi29 is noncontractile and approximately 380 A long. A 1.8-A resolution crystal structure of gene product 13 (gp13) shows that this tail protein has spatially well separated N- and C-terminal domains, whose structures resemble lysozyme-like enzymes and metallo-endopeptidases, respectively. CryoEM reconstructions of the WT bacteriophage and mutant bacteriophages missing some or most of gp13 shows that this enzyme is located at the distal end of the phi29 tail knob. This finding suggests that gp13 functions as a tail-associated, peptidoglycan-degrading enzyme able to cleave both the polysaccharide backbone and peptide cross-links of the peptidoglycan cell wall. Comparisons of the gp13(-) mutants with the phi29 mature and emptied phage structures suggest the sequence of events that occur during the penetration of the tail through the peptidoglycan layer.

-	~~{{STRUCTURE_3ct5\| PDB=3ct5 \| SCENE= }}~~	+	Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail.,Xiang Y, Morais MC, Cohen DN, Bowman VD, Anderson DL, Rossmann MG Proc Natl Acad Sci U S A. 2008 Jul 15;105(28):9552-7. Epub 2008 Jul 7. PMID:18606992<ref>PMID:18606992</ref>

-	~~===Crystal and cryoEM structural studies~~ of ~~a cell wall degrading enzyme in~~ the ~~bacteriophage phi29 tail===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18606992}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3ct5]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bacillus_phage_phi29 Bacillus phage phi29]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018606992<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Bacillus phage phi29]]		[[Category: Bacillus phage phi29]]
	[[Category: Rossmann, M G.]]		[[Category: Rossmann, M G.]]

OCA: Protected "3ct5" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 22:50:04 GMT

Protected "3ct5" [edit=sysop:move=sysop]

←Older revision

Revision as of 22:50, 7 January 2013

OCA at 22:50, 7 January 2013

OCA — Mon, 07 Jan 2013 22:50:02 GMT

←Older revision		Revision as of 22:50, 7 January 2013
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-	{{Seed}}
	[[Image:3ct5.png\|left\|200px]]		[[Image:3ct5.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3ct5", 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_3ct5\| PDB=3ct5 \| SCENE= }}		{{STRUCTURE_3ct5\| PDB=3ct5 \| SCENE= }}

	===Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail===		===Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18606992}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18606992 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18606992}}		{{ABSTRACT_PUBMED_18606992}}

	==About this Structure==		==About this Structure==
-	~~3CT5~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_phi29 Bacillus phage phi29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA].	+	[[3ct5]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_phi29 Bacillus phage phi29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18606992~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018606992</ref><references group="xtra"/>
	[[Category: Bacillus phage phi29]]		[[Category: Bacillus phage phi29]]
	[[Category: Rossmann, M G.]]		[[Category: Rossmann, M G.]]
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	[[Category: Late protein]]		[[Category: Late protein]]
	[[Category: Phi29]]		[[Category: Phi29]]
-	[[Category: Structure]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 14:13:31 2009''

OCA at 12:13, 17 February 2009

OCA — Tue, 17 Feb 2009 12:13:32 GMT

←Older revision		Revision as of 12:13, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3CT5 is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_phi29 Bacillus phage phi29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA].	+	3CT5 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_phi29 Bacillus phage phi29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA].

	==Reference==		==Reference==
-	Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail., Xiang Y, Morais MC, Cohen DN, Bowman VD, Anderson DL, Rossmann MG, Proc Natl Acad Sci U S A. 2008 Jul 15;105(28):9552-7. Epub 2008 Jul 7. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18606992 18606992]~~	+	<ref group="xtra">PMID:18606992</ref><references group="xtra"/>
	[[Category: Bacillus phage phi29]]		[[Category: Bacillus phage phi29]]
-	[[Category: Single protein]]
	[[Category: Rossmann, M G.]]		[[Category: Rossmann, M G.]]
	[[Category: Xiang, Y.]]		[[Category: Xiang, Y.]]
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	[[Category: Structure]]		[[Category: Structure]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Jul 23 09~~:59:~~58 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 14:13:31 2009''

OCA at 06:59, 23 July 2008

OCA — Wed, 23 Jul 2008 06:59:58 GMT

←Older revision		Revision as of 06:59, 23 July 2008
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	{{Seed}}		{{Seed}}
-	[[Image:3ct5.~~jpg~~\|left\|200px]]	+	[[Image:3ct5.png\|left\|200px]]

	<!--		<!--
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	===Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail===		===Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_18606992}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18606992 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18606992}}

	==About this Structure==		==About this Structure==
	3CT5 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_phi29 Bacillus phage phi29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA].		3CT5 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_phi29 Bacillus phage phi29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CT5 OCA].
		+
		+	==Reference==
		+	Crystal and cryoEM structural studies of a cell wall degrading enzyme in the bacteriophage phi29 tail., Xiang Y, Morais MC, Cohen DN, Bowman VD, Anderson DL, Rossmann MG, Proc Natl Acad Sci U S A. 2008 Jul 15;105(28):9552-7. Epub 2008 Jul 7. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18606992 18606992]
	[[Category: Bacillus phage phi29]]		[[Category: Bacillus phage phi29]]
	[[Category: Single protein]]		[[Category: Single protein]]
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	[[Category: Structure]]		[[Category: Structure]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu~~ Jul ~~3 11~~:30:12 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 23 09:59:58 2008''