2ipc - Revision history

OCA at 09:03, 21 February 2024

OCA — Wed, 21 Feb 2024 09:03:56 GMT

←Older revision		Revision as of 09:03, 21 February 2024
Line 3:		Line 3:
	<StructureSection load='2ipc' size='340' side='right'caption='[[2ipc]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='2ipc' size='340' side='right'caption='[[2ipc]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Thet8 Thet8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IPC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IPC FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~SecA (~~[~~https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=300852 THET8])~~</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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [https://pdbe.org/2ipc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [https://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ipc ProSAT], [https://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</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=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [https://pdbe.org/2ipc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [https://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ipc ProSAT], [https://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/SECA_THET8 SECA_THET8]] Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. Has a central role in coupling the hydrolysis of ATP to the transfer of proteins into and across the cell membrane, serving as an ATP-driven molecular motor driving the stepwise translocation of polypeptide chains across the membrane.[HAMAP-Rule:MF_01382]	+	[https://www.uniprot.org/uniprot/SECA_THET8 SECA_THET8] Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. Has a central role in coupling the hydrolysis of ATP to the transfer of proteins into and across the cell membrane, serving as an ATP-driven molecular motor driving the stepwise translocation of polypeptide chains across the membrane.[HAMAP-Rule:MF_01382]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 19:		Line 19:
	</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=2ipc 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=2ipc ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The mechanism of pre-protein export through the bacterial cytoplasmic membrane, in which the SecA ATPase plays a crucial role as an "energy supplier", is poorly understood. In particular, biochemical and structural studies provide contradictory data as to the oligomeric state of SecA when it is integrated into the active trans-membrane translocase. Here, we report the 2.8 A resolution crystal structure of the Thermus thermophilus SecA protein (TtSecA). Whereas the structure of the TtSecA monomer closely resembles that from other bacteria, the oligomeric state of TtSecA is strikingly distinct. In contrast to the antiparallel (head-to-tail) dimerization reported previously for the other bacterial systems, TtSecA forms parallel (head-to-head) dimers that are reminiscent of open scissors. The dimer interface is abundant in bulky Arg and Lys side-chains from both subunits, which stack on one another to form an unusual "basic zipper" that is highly conserved, as revealed by homology modeling and sequence analysis. The basic zipper is sealed on both ends by two pairs of the salt bridges formed between the basic side-chains from the zipper and two invariant acidic residues. The organization of the dimers, in which the two pre-protein binding domains are located proximal to each other at the tip of the "scissors", might allow a concerted mode of substrate recognition while the opening/closing of the scissors might facilitate translocation.
-
-	Crystal structure of the translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer.,Vassylyev DG, Mori H, Vassylyeva MN, Tsukazaki T, Kimura Y, Tahirov TH, Ito K J Mol Biol. 2006 Dec 1;364(3):248-58. Epub 2006 Sep 29. PMID:17059823<ref>PMID:17059823</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2ipc" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
-	*[[Preprotein translocase\|Preprotein translocase]]	+	*[[Preprotein translocase 3D structures\|Preprotein translocase 3D structures]]
	*[[SecA\|SecA]]		*[[SecA\|SecA]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Thet8~~]]	+	[[Category: Thermus thermophilus HB8]]
-	[[Category: Ito, K]]	+	[[Category: Ito K]]
-	[[Category: Kimura, Y]]	+	[[Category: Kimura Y]]
-	[[Category: Mori, H]]	+	[[Category: Mori H]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Tahirov TH]]
-	[[Category: Tahirov~~, T H~~]]	+	[[Category: Tsukazaki T]]
-	[[Category: Tsukazaki, T]]	+	[[Category: Vassylyev DG]]
-	[[Category: Vassylyev~~, D G~~]]	+	[[Category: Vassylyeva MN]]
-	[[Category: Vassylyeva~~, M N]]~~	+
-	~~[[Category: Atpase]]~~	+
-	~~[[Category: Nucleotide binding fold]]~~	+
-	~~[[Category: Parallel dimer]]~~	+
-	~~[[Category: Rsgi]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 11:20, 31 March 2021

OCA — Wed, 31 Mar 2021 11:20:22 GMT

←Older revision		Revision as of 11:20, 31 March 2021
Line 1:		Line 1:

	==Crystal structure of the translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer==		==Crystal structure of the translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer==
-	<StructureSection load='2ipc' size='340' side='right' caption='[[2ipc]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='2ipc' size='340' side='right'caption='[[2ipc]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2IPC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IPC FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SecA ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SecA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</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=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [~~http~~://pdbe.org/2ipc PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ipc ProSAT], [~~http~~://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</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=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [https://pdbe.org/2ipc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [https://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ipc ProSAT], [https://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/SECA_THET8 SECA_THET8]] Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. Has a central role in coupling the hydrolysis of ATP to the transfer of proteins into and across the cell membrane, serving as an ATP-driven molecular motor driving the stepwise translocation of polypeptide chains across the membrane.[HAMAP-Rule:MF_01382]	+	[[https://www.uniprot.org/uniprot/SECA_THET8 SECA_THET8]] Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. Has a central role in coupling the hydrolysis of ATP to the transfer of proteins into and across the cell membrane, serving as an ATP-driven molecular motor driving the stepwise translocation of polypeptide chains across the membrane.[HAMAP-Rule:MF_01382]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Thet8]]		[[Category: Thet8]]
	[[Category: Ito, K]]		[[Category: Ito, K]]

OCA at 08:25, 4 July 2018

OCA — Wed, 04 Jul 2018 08:25:08 GMT

←Older revision		Revision as of 08:25, 4 July 2018
Line 1:		Line 1:
		+
	==Crystal structure of the translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer==		==Crystal structure of the translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer==
	<StructureSection load='2ipc' size='340' side='right' caption='[[2ipc]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='2ipc' size='340' side='right' caption='[[2ipc]], [[Resolution\|resolution]] 2.80Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IPC FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IPC FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SecA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SecA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</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=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [http://pdbe.org/2ipc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [http://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [http://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</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=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [http://pdbe.org/2ipc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [http://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ipc ProSAT], [http://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ip/2ipc_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ip/2ipc_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>

OCA at 03:09, 9 February 2016

OCA — Tue, 09 Feb 2016 03:09:45 GMT

←Older revision		Revision as of 03:09, 9 February 2016
Line 16:		Line 16:
	<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=2ipc ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 18:01, 10 September 2015

OCA — Thu, 10 Sep 2015 18:01:39 GMT

←Older revision		Revision as of 18:01, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2ipc' size='340' side='right' caption='[[2ipc]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='2ipc' size='340' side='right' caption='[[2ipc]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermus_thermophilus Thermus thermophilus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IPC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IPC FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SecA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~274 Thermus thermophilus~~])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SecA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</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=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [http://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [http://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</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=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [http://pdbe.org/2ipc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [http://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [http://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SECA_THET8 SECA_THET8]] Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. Has a central role in coupling the hydrolysis of ATP to the transfer of proteins into and across the cell membrane, serving as an ATP-driven molecular motor driving the stepwise translocation of polypeptide chains across the membrane.[HAMAP-Rule:MF_01382]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 24:		Line 26:
	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 2ipc" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Thermus thermophilus~~]]	+	[[Category: Thet8]]
	[[Category: Ito, K]]		[[Category: Ito, K]]
	[[Category: Kimura, Y]]		[[Category: Kimura, Y]]

OCA at 08:29, 16 January 2015

OCA — Fri, 16 Jan 2015 08:29:34 GMT

←Older revision		Revision as of 08:29, 16 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IPC FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IPC FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SecA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SecA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])</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=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [http://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [http://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</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=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [http://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [http://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
-	[[Category: Ito, K.]]	+	[[Category: Ito, K]]
-	[[Category: Kimura, Y.]]	+	[[Category: Kimura, Y]]
-	[[Category: Mori, H.]]	+	[[Category: Mori, H]]
-	[[Category: ~~RSGI, RIKEN~~ Structural ~~Genomics/Proteomics Initiative.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Tahirov, T H.]]	+	[[Category: Tahirov, T H]]
-	[[Category: Tsukazaki, T.]]	+	[[Category: Tsukazaki, T]]
-	[[Category: Vassylyev, D G.]]	+	[[Category: Vassylyev, D G]]
-	[[Category: Vassylyeva, M N.]]	+	[[Category: Vassylyeva, M N]]
	[[Category: Atpase]]		[[Category: Atpase]]
	[[Category: Nucleotide binding fold]]		[[Category: Nucleotide binding fold]]
	[[Category: Parallel dimer]]		[[Category: Parallel dimer]]
-	[[Category: Riken structural genomics/proteomics initiative]]
	[[Category: Rsgi]]		[[Category: Rsgi]]
-	[[Category: Structural genomic]]
	[[Category: Transport protein]]		[[Category: Transport protein]]

OCA at 03:38, 29 September 2014

OCA — Mon, 29 Sep 2014 03:38:01 GMT

←Older revision		Revision as of 03:38, 29 September 2014
Line 1:		Line 1:
-	[[~~Image~~:2ipc.~~png\|left~~\|200px]]	+	==Crystal structure of the translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer==
		+	<StructureSection load='2ipc' size='340' side='right' caption='[[2ipc]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2ipc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2IPC FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SecA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])</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=2ipc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ipc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ipc RCSB], [http://www.ebi.ac.uk/pdbsum/2ipc PDBsum], [http://www.topsan.org/Proteins/RSGI/2ipc TOPSAN]</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/ip/2ipc_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 mechanism of pre-protein export through the bacterial cytoplasmic membrane, in which the SecA ATPase plays a crucial role as an "energy supplier", is poorly understood. In particular, biochemical and structural studies provide contradictory data as to the oligomeric state of SecA when it is integrated into the active trans-membrane translocase. Here, we report the 2.8 A resolution crystal structure of the Thermus thermophilus SecA protein (TtSecA). Whereas the structure of the TtSecA monomer closely resembles that from other bacteria, the oligomeric state of TtSecA is strikingly distinct. In contrast to the antiparallel (head-to-tail) dimerization reported previously for the other bacterial systems, TtSecA forms parallel (head-to-head) dimers that are reminiscent of open scissors. The dimer interface is abundant in bulky Arg and Lys side-chains from both subunits, which stack on one another to form an unusual "basic zipper" that is highly conserved, as revealed by homology modeling and sequence analysis. The basic zipper is sealed on both ends by two pairs of the salt bridges formed between the basic side-chains from the zipper and two invariant acidic residues. The organization of the dimers, in which the two pre-protein binding domains are located proximal to each other at the tip of the "scissors", might allow a concerted mode of substrate recognition while the opening/closing of the scissors might facilitate translocation.

-	~~{{STRUCTURE_2ipc\| PDB=2ipc \| SCENE= }}~~	+	Crystal structure of the translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer.,Vassylyev DG, Mori H, Vassylyeva MN, Tsukazaki T, Kimura Y, Tahirov TH, Ito K J Mol Biol. 2006 Dec 1;364(3):248-58. Epub 2006 Sep 29. PMID:17059823<ref>PMID:17059823</ref>

-	~~===Crystal structure~~ of the ~~translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17059823}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2ipc]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Thermus_thermophilus Thermus thermophilus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA].~~	+

	==See Also==		==See Also==
		+	*[[Preprotein translocase\|Preprotein translocase]]
	*[[SecA\|SecA]]		*[[SecA\|SecA]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017059823<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Ito, K.]]		[[Category: Ito, K.]]

OCA at 12:26, 20 October 2012

OCA — Sat, 20 Oct 2012 12:26:31 GMT

←Older revision		Revision as of 12:26, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2ipc]] is a 4 chain structure ~~of [[SecA]]~~ with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA].	+	[[2ipc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA].

	==See Also==		==See Also==

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

OCA — Thu, 26 Jul 2012 08:43:20 GMT

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

←Older revision

Revision as of 08:43, 26 July 2012

OCA at 08:43, 26 July 2012

OCA — Thu, 26 Jul 2012 08:43:19 GMT

←Older revision		Revision as of 08:43, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2ipc.png\|left\|200px]]		[[Image:2ipc.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2ipc", 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_2ipc\| PDB=2ipc \| SCENE= }}		{{STRUCTURE_2ipc\| PDB=2ipc \| SCENE= }}

	===Crystal structure of the translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer===		===Crystal structure of the translocation ATPase SecA from Thermus thermophilus reveals a parallel, head-to-head dimer===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17059823}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17059823 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17059823}}		{{ABSTRACT_PUBMED_17059823}}

	==About this Structure==		==About this Structure==
-	~~2IPC~~ is a 4 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA].	+	[[2ipc]] is a 4 chain structure of [[SecA]] with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IPC OCA].
		+
		+	==See Also==
		+	*[[SecA\|SecA]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17059823~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017059823</ref><references group="xtra"/>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Ito, K.]]		[[Category: Ito, K.]]
Line 39:		Line 30:
	[[Category: Rsgi]]		[[Category: Rsgi]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
-		+	[[Category: Transport protein]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 05:59:10 2009''~~	+