4o1s - Revision history

OCA at 17:05, 20 September 2023

OCA — Wed, 20 Sep 2023 17:05:59 GMT

←Older revision		Revision as of 17:05, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4o1s]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoplasma_volcanium_GSS1 Thermoplasma volcanium GSS1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O1S FirstGlance]. <br>		<table><tr><td colspan='2'>[[4o1s]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoplasma_volcanium_GSS1 Thermoplasma volcanium GSS1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O1S FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.7008Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4o1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o1s OCA], [https://pdbe.org/4o1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o1s RCSB], [https://www.ebi.ac.uk/pdbsum/4o1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o1s 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=4o1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o1s OCA], [https://pdbe.org/4o1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o1s RCSB], [https://www.ebi.ac.uk/pdbsum/4o1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o1s ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:52, 18 January 2023

OCA — Wed, 18 Jan 2023 08:52:11 GMT

←Older revision		Revision as of 08:52, 18 January 2023
Line 1:		Line 1:

	==Crystal structure of TvoVMA intein==		==Crystal structure of TvoVMA intein==
-	<StructureSection load='4o1s' size='340' side='right' caption='[[4o1s]], [[Resolution\|resolution]] 2.70Å' scene=''>	+	<StructureSection load='4o1s' size='340' side='right'caption='[[4o1s]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4o1s]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Thevo Thevo~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O1S OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4O1S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4o1s]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoplasma_volcanium_GSS1 Thermoplasma volcanium GSS1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4O1S FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">atpA, TV0051, TVG0054274 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=273116 THEVO])</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=4o1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o1s OCA], [https://pdbe.org/4o1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4o1s RCSB], [https://www.ebi.ac.uk/pdbsum/4o1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4o1s ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/H(+)-transporting_two-sector_ATPase H(+)-transporting two-sector ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.14 3.6.3.14] </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=4o1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o1s OCA], [~~http~~://pdbe.org/4o1s PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4o1s RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4o1s PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4o1s ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/VATA_THEVO VATA_THEVO]] Produces ATP from ADP in the presence of a proton gradient across the membrane. The archaeal alpha chain is a catalytic subunit.	+	[https://www.uniprot.org/uniprot/VATA_THEVO VATA_THEVO] Produces ATP from ADP in the presence of a proton gradient across the membrane. The archaeal alpha chain is a catalytic subunit.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 20:

	==See Also==		==See Also==
-	*[[ATPase\|ATPase]]	+	*[[ATPase 3D structures\|ATPase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Thevo~~]]	+	[[Category: Large Structures]]
-	[[Category: Aranko~~, A S~~]]	+	[[Category: Thermoplasma volcanium GSS1]]
-	[[Category: Iwai, H]]	+	[[Category: Aranko AS]]
-	[[Category: Kajander, T]]	+	[[Category: Iwai H]]
-	[[Category: Oeemig~~, J S~~]]	+	[[Category: Kajander T]]
-	[[Category: Wlodawer, A]]	+	[[Category: Oeemig JS]]
-	[[Category: Zhou, D]]	+	[[Category: Wlodawer A]]
-	~~[[Category: Splicing~~]]	+	[[Category: Zhou D]]

OCA at 09:24, 4 August 2016

OCA — Thu, 04 Aug 2016 09:24:12 GMT

←Older revision		Revision as of 09:24, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of TvoVMA intein==		==Crystal structure of TvoVMA intein==
	<StructureSection load='4o1s' size='340' side='right' caption='[[4o1s]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='4o1s' size='340' side='right' caption='[[4o1s]], [[Resolution\|resolution]] 2.70Å' scene=''>
Line 6:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">atpA, TV0051, TVG0054274 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=273116 THEVO])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">atpA, TV0051, TVG0054274 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=273116 THEVO])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/H(+)-transporting_two-sector_ATPase H(+)-transporting two-sector ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.14 3.6.3.14] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/H(+)-transporting_two-sector_ATPase H(+)-transporting two-sector ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.14 3.6.3.14] </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=4o1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o1s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o1s RCSB], [http://www.ebi.ac.uk/pdbsum/4o1s 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=4o1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o1s OCA], [http://pdbe.org/4o1s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4o1s RCSB], [http://www.ebi.ac.uk/pdbsum/4o1s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4o1s ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 4o1s" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[ATPase\|ATPase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:48, 25 December 2014

OCA — Thu, 25 Dec 2014 07:48:11 GMT

←Older revision		Revision as of 07:48, 25 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4o1s\| PDB~~=4o1s \| ~~SCENE~~= }}	+	==Crystal structure of TvoVMA intein==
-	===~~Crystal~~ structure ~~of TvoVMA intein~~===	+	<StructureSection load='4o1s' size='340' side='right' caption='[[4o1s]], [[Resolution\|resolution]] 2.70Å' scene=''>
-	~~{{ABSTRACT_PUBMED_24574026}}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4o1s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thevo Thevo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O1S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4O1S FirstGlance]. <br>
-	==Function==	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">atpA, TV0051, TVG0054274 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=273116 THEVO])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/H(+)-transporting_two-sector_ATPase H(+)-transporting two-sector ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.14 3.6.3.14] </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=4o1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4o1s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4o1s RCSB], [http://www.ebi.ac.uk/pdbsum/4o1s PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
	[[http://www.uniprot.org/uniprot/VATA_THEVO VATA_THEVO]] Produces ATP from ADP in the presence of a proton gradient across the membrane. The archaeal alpha chain is a catalytic subunit.		[[http://www.uniprot.org/uniprot/VATA_THEVO VATA_THEVO]] Produces ATP from ADP in the presence of a proton gradient across the membrane. The archaeal alpha chain is a catalytic subunit.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Protein splicing is an autocatalytic process involving self-excision of an internal protein domain, the intein, and concomitant ligation of the two flanking sequences, the exteins, with a peptide bond. Protein splicing can also take place in trans by naturally split inteins or artificially split inteins, ligating the exteins on two different polypeptide chains into one polypeptide chain. Protein trans-splicing could work in foreign contexts by replacing the native extein sequences with other protein sequences. Protein ligation using protein trans-splicing increasingly becomes a useful tool for biotechnological applications such as semi-synthesis of proteins, segmental isotopic labeling, and in vivo protein engineering. However, only a few split inteins have been successfully applied for protein ligation. Naturally split inteins have been widely used, but they are cross-reactive to each other, limiting their applications to multiple-fragment ligation. Based on the three-dimensional structures including two newly determined intein structures, we derived 21 new split inteins from four highly efficient cis-splicing inteins, in order to develop novel split inteins suitable for protein ligation. We systematically compared trans-splicing of 24 split inteins and tested the cross-activities among them to identify orthogonal split intein fragments that could be used in chemical biology and biotechnological applications.

-	~~==About this~~ Structure==	+	Structure-based engineering and comparison of novel split inteins for protein ligation.,Aranko AS, Oeemig JS, Zhou D, Kajander T, Wlodawer A, Iwai H Mol Biosyst. 2014 Feb 26. PMID:24574026<ref>PMID:24574026</ref>
-	~~[[4o1s]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Thevo Thevo]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4O1S OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:024574026</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Thevo]]		[[Category: Thevo]]
-	[[Category: Aranko, A S.]]	+	[[Category: Aranko, A S]]
-	[[Category: Iwai, H.]]	+	[[Category: Iwai, H]]
-	[[Category: Kajander, T.]]	+	[[Category: Kajander, T]]
-	[[Category: Oeemig, J S.]]	+	[[Category: Oeemig, J S]]
-	[[Category: Wlodawer, A.]]	+	[[Category: Wlodawer, A]]
-	[[Category: Zhou, D.]]	+	[[Category: Zhou, D]]
	[[Category: Splicing]]		[[Category: Splicing]]

OCA at 07:58, 16 April 2014

OCA — Wed, 16 Apr 2014 07:58:43 GMT

←Older revision		Revision as of 07:58, 16 April 2014
Line 7:		Line 7:

	==About this Structure==		==About this Structure==
-	[[4o1s]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O1S OCA].	+	[[4o1s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thevo Thevo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O1S OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:024574026</ref><references group="xtra"/><references/>		<ref group="xtra">PMID:024574026</ref><references group="xtra"/><references/>
		+	[[Category: Thevo]]
	[[Category: Aranko, A S.]]		[[Category: Aranko, A S.]]
	[[Category: Iwai, H.]]		[[Category: Iwai, H.]]

OCA at 08:41, 19 March 2014

OCA — Wed, 19 Mar 2014 08:41:29 GMT

←Older revision		Revision as of 08:41, 19 March 2014
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4o1s\| PDB=4o1s \| SCENE= }}
		+	===Crystal structure of TvoVMA intein===
		+	{{ABSTRACT_PUBMED_24574026}}

-	The ~~entry 4o1s~~ is ~~ON HOLD until Paper Publication~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/VATA_THEVO VATA_THEVO]] Produces ATP from ADP in the presence of a proton gradient across the membrane. The archaeal alpha chain is a catalytic subunit.

-	~~Authors~~: ~~Aranko, A.S., Oeemig, J.S., Zhou, D~~.~~, Kajander, T~~.~~, Wlodawer, A~~.~~, Iwai, H~~.	+	==About this Structure==
		+	[[4o1s]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4O1S OCA].

-	~~Description~~: ~~Crystal structure of a intein TvoVMA~~	+	==Reference==
		+	<ref group="xtra">PMID:024574026</ref><references group="xtra"/><references/>
		+	[[Category: Aranko, A S.]]
		+	[[Category: Iwai, H.]]
		+	[[Category: Kajander, T.]]
		+	[[Category: Oeemig, J S.]]
		+	[[Category: Wlodawer, A.]]
		+	[[Category: Zhou, D.]]
		+	[[Category: Splicing]]

OCA at 09:22, 8 January 2014

OCA — Wed, 08 Jan 2014 09:22:10 GMT

←Older revision		Revision as of 09:22, 8 January 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4o1s is ON HOLD	+	The entry 4o1s is ON HOLD until Paper Publication

-	Authors: Aranko, A.S., Oeemig, J.S., Zhou, D, Kajander, T, Wlodawer, A, Iwai, H	+	Authors: Aranko, A.S., Oeemig, J.S., Zhou, D., Kajander, T., Wlodawer, A., Iwai, H.

	Description: Crystal structure of a intein TvoVMA		Description: Crystal structure of a intein TvoVMA

OCA: Protected "4o1s" [edit=sysop:move=sysop]

OCA — Wed, 25 Dec 2013 09:30:38 GMT

Protected "4o1s" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:30, 25 December 2013

OCA: New page: '''Unreleased structure''' The entry 4o1s is ON HOLD Authors: Aranko, A.S., Oeemig, J.S., Zhou, D, Kajander, T, Wlodawer, A, Iwai, H Description: Crystal structure of a intein TvoVMA

OCA — Wed, 25 Dec 2013 09:30:37 GMT

New page: '''Unreleased structure''' The entry 4o1s is ON HOLD Authors: Aranko, A.S., Oeemig, J.S., Zhou, D, Kajander, T, Wlodawer, A, Iwai, H Description: Crystal structure of a intein TvoVMA

New page

'''Unreleased structure'''

The entry 4o1s is ON HOLD

Authors: Aranko, A.S., Oeemig, J.S., Zhou, D, Kajander, T, Wlodawer, A, Iwai, H

Description: Crystal structure of a intein TvoVMA