1toc - Revision history

OCA at 07:28, 30 October 2024

2024-10-30T07:28:53Z

← Older revision		Revision as of 07:28, 30 October 2024
Line 14:		Line 14:
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/to/1toc_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/to/1toc_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/~~initialview01~~.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
	<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/main_output.php?pdb_ID=1toc 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=1toc ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Ornithodorin, isolated from the blood sucking soft tick Ornithodoros moubata, is a potent (Ki = 10(-12) M) and highly selective thrombin inhibitor. Internal sequence homology indicates a two domain protein. Each domain resembles the Kunitz inhibitor basic pancreatic trypsin inhibitor (BPTI) and also the tick anticoagulant peptide (TAP) isolated from the same organism. The 3.1 A crystal structure of the ornithodorin-thrombin complex confirms that both domains of ornithodorin exhibit a distorted BPTI-like fold. The N-terminal portion and the C-terminal helix of each domain are structurally very similar to BPTI, whereas the regions corresponding to the binding loop of BPTI adopt different conformations. Neither of the two 'reactive site loops' of ornithodorin contacts the protease in the ornithodorin-thrombin complex. Instead, the N-terminal residues of ornithodorin bind to the active site of thrombin, reminiscent of the thrombin-hirudin interaction. The C-terminal domain binds at the fibrinogen recognition exosite. Molecular recognition of its target protease by this double-headed Kunitz-type inhibitor diverges considerably from other members of this intensely studied superfamily. The complex structure provides a model to explain the perplexing results of mutagenesis studies on the TAP-factor Xa interaction.

			The ornithodorin-thrombin crystal structure, a key to the TAP enigma?,van de Locht A, Stubbs MT, Bode W, Friedrich T, Bollschweiler C, Hoffken W, Huber R EMBO J. 1996 Nov 15;15(22):6011-7. PMID:8947023<ref>PMID:8947023</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 1toc" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Proteinase 3D structures\|Proteinase 3D structures]]		*[[Proteinase 3D structures\|Proteinase 3D structures]]
	*[[Thrombin 3D Structures\|Thrombin 3D Structures]]		*[[Thrombin 3D Structures\|Thrombin 3D Structures]]
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:42, 1 May 2024

2024-05-01T08:42:57Z

← Older revision		Revision as of 08:42, 1 May 2024
Line 3:		Line 3:
	<StructureSection load='1toc' size='340' side='right'caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='1toc' size='340' side='right'caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Argasid_tick Argasid tick~~] and [https://en.wikipedia.org/wiki/~~Bovin Bovin~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TOC FirstGlance]. <br>		<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus] and [https://en.wikipedia.org/wiki/Ornithodoros_moubata Ornithodoros moubata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TOC FirstGlance]. <br>
	</td></tr><tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"~~><span class~~=~~'plainlinks'~~>[~~https://en.wikipedia.org/wiki/Thrombin Thrombin~~]~~, with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=~~3.~~4.21.5 3.4.21.5] </span>~~</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]] 3.1Å</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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [https://pdbe.org/1toc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [https://www.ebi.ac.uk/pdbsum/1toc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1toc 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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [https://pdbe.org/1toc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [https://www.ebi.ac.uk/pdbsum/1toc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1toc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/THRB_BOVIN THRB_BOVIN]] Thrombin, which cleaves bonds after Arg and Lys, converts fibrinogen to fibrin and activates factors V, VII, VIII, XIII, and, in complex with thrombomodulin, protein C. Functions in blood homeostasis, inflammation and wound healing (By similarity)~~. [[https://www.uniprot.org/uniprot/ORNT_ORNMO ORNT_ORNMO]] Potent (Ki = 10(-12) M) and highly selective thrombin inhibitor~~.		[https://www.uniprot.org/uniprot/THRB_BOVIN THRB_BOVIN] Thrombin, which cleaves bonds after Arg and Lys, converts fibrinogen to fibrin and activates factors V, VII, VIII, XIII, and, in complex with thrombomodulin, protein C. Functions in blood homeostasis, inflammation and wound healing (By similarity).
	== 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=1toc 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=1toc ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	Ornithodorin, isolated from the blood sucking soft tick Ornithodoros moubata, is a potent (Ki = 10(-12) M) and highly selective thrombin inhibitor. Internal sequence homology indicates a two domain protein. Each domain resembles the Kunitz inhibitor basic pancreatic trypsin inhibitor (BPTI) and also the tick anticoagulant peptide (TAP) isolated from the same organism. The 3.1 A crystal structure of the ornithodorin-thrombin complex confirms that both domains of ornithodorin exhibit a distorted BPTI-like fold. The N-terminal portion and the C-terminal helix of each domain are structurally very similar to BPTI, whereas the regions corresponding to the binding loop of BPTI adopt different conformations. Neither of the two 'reactive site loops' of ornithodorin contacts the protease in the ornithodorin-thrombin complex. Instead, the N-terminal residues of ornithodorin bind to the active site of thrombin, reminiscent of the thrombin-hirudin interaction. The C-terminal domain binds at the fibrinogen recognition exosite. Molecular recognition of its target protease by this double-headed Kunitz-type inhibitor diverges considerably from other members of this intensely studied superfamily. The complex structure provides a model to explain the perplexing results of mutagenesis studies on the TAP-factor Xa interaction.

	The ornithodorin-thrombin crystal structure, a key to the TAP enigma?,van de Locht A, Stubbs MT, Bode W, Friedrich T, Bollschweiler C, Hoffken W, Huber R EMBO J. 1996 Nov 15;15(22):6011-7. PMID:8947023<ref>PMID:8947023</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 1toc" style="background-color:#fffaf0;"></div>~~

	==See Also==		==See Also==
			*[[Proteinase 3D structures\|Proteinase 3D structures]]
	*[[Thrombin 3D Structures\|Thrombin 3D Structures]]		*[[Thrombin 3D Structures\|Thrombin 3D Structures]]
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Argasid tick]]~~		[[Category: Bos taurus]]
	~~[[Category: Bovin~~]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Thrombin~~]]		[[Category: Ornithodoros moubata]]
	[[Category: Bode, W]]		[[Category: Bode W]]
	[[Category: Huber, R]]		[[Category: Huber R]]
	[[Category: Locht, A ~~Van De]]~~		[[Category: Van De Locht A]]
	~~[[Category: Acute phase]]~~
	~~[[Category: Gamma-carboxyglutamic acid]]~~
	~~[[Category: Hydrolase]]~~
	~~[[Category: Kringle]]~~
	~~[[Category: Liver]]~~
	~~[[Category: Serine protease kunitz-like inhibitor]]~~
	~~[[Category: Vitamin k]]~~
	~~[[Category: Zymogen~~]]

OCA at 09:30, 29 September 2021

2021-09-29T09:30:19Z

← Older revision		Revision as of 09:30, 29 September 2021
Line 3:		Line 3:
	<StructureSection load='1toc' size='340' side='right'caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='1toc' size='340' side='right'caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Argasid_tick Argasid tick] and [~~http~~://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1TOC FirstGlance]. <br>		<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Argasid_tick Argasid tick] and [https://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TOC FirstGlance]. <br>
	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Thrombin Thrombin], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.5 3.4.21.5] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Thrombin Thrombin], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.5 3.4.21.5] </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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [~~http~~://pdbe.org/1toc PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1toc PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1toc 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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [https://pdbe.org/1toc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [https://www.ebi.ac.uk/pdbsum/1toc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1toc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/THRB_BOVIN THRB_BOVIN]] Thrombin, which cleaves bonds after Arg and Lys, converts fibrinogen to fibrin and activates factors V, VII, VIII, XIII, and, in complex with thrombomodulin, protein C. Functions in blood homeostasis, inflammation and wound healing (By similarity). [[~~http~~://www.uniprot.org/uniprot/ORNT_ORNMO ORNT_ORNMO]] Potent (Ki = 10(-12) M) and highly selective thrombin inhibitor.		[[https://www.uniprot.org/uniprot/THRB_BOVIN THRB_BOVIN]] Thrombin, which cleaves bonds after Arg and Lys, converts fibrinogen to fibrin and activates factors V, VII, VIII, XIII, and, in complex with thrombomodulin, protein C. Functions in blood homeostasis, inflammation and wound healing (By similarity). [[https://www.uniprot.org/uniprot/ORNT_ORNMO ORNT_ORNMO]] Potent (Ki = 10(-12) M) and highly selective thrombin inhibitor.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 30:

	==See Also==		==See Also==
	*[[Thrombin\|Thrombin]]		*[[Thrombin 3D Structures\|Thrombin 3D Structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:39, 25 December 2019

2019-12-25T13:39:13Z

← Older revision		Revision as of 13:39, 25 December 2019
Line 1:		Line 1:

	==STRUCTURE OF SERINE PROTEINASE==		==STRUCTURE OF SERINE PROTEINASE==
	<StructureSection load='1toc' size='340' side='right' caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='1toc' size='340' side='right'caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Argasid_tick Argasid tick] and [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TOC FirstGlance]. <br>		<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Argasid_tick Argasid tick] and [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TOC FirstGlance]. <br>
Line 37:		Line 37:
	[[Category: Argasid tick]]		[[Category: Argasid tick]]
	[[Category: Bovin]]		[[Category: Bovin]]
			[[Category: Large Structures]]
	[[Category: Thrombin]]		[[Category: Thrombin]]
	[[Category: Bode, W]]		[[Category: Bode, W]]

OCA at 08:30, 21 March 2018

2018-03-21T08:30:23Z

← Older revision		Revision as of 08:30, 21 March 2018
Line 1:		Line 1:

	==STRUCTURE OF SERINE PROTEINASE==		==STRUCTURE OF SERINE PROTEINASE==
	<StructureSection load='1toc' size='340' side='right' caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='1toc' size='340' side='right' caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Argasid_tick Argasid tick] and [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TOC FirstGlance]. <br>		<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Argasid_tick Argasid tick] and [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TOC FirstGlance]. <br>
	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thrombin Thrombin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.5 3.4.21.5] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thrombin Thrombin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.5 3.4.21.5] </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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [http://pdbe.org/1toc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [http://www.ebi.ac.uk/pdbsum/1toc 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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [http://pdbe.org/1toc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [http://www.ebi.ac.uk/pdbsum/1toc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1toc ProSAT]</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/to/1toc_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/to/1toc_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>
	</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=1toc ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 07:33, 11 September 2015

2015-09-11T07:33:13Z

← Older revision		Revision as of 07:33, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1toc' size='340' side='right' caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='1toc' size='340' side='right' caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bos_taurus Bos taurus~~] and [http://en.wikipedia.org/wiki/~~Ornithodoros_moubata Ornithodoros moubata~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TOC FirstGlance]. <br>		<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Argasid_tick Argasid tick] and [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TOC FirstGlance]. <br>
	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thrombin Thrombin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.5 3.4.21.5] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thrombin Thrombin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.5 3.4.21.5] </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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [http://www.ebi.ac.uk/pdbsum/1toc 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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [http://pdbe.org/1toc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [http://www.ebi.ac.uk/pdbsum/1toc PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 26:		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 1toc" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Bos taurus~~]]		[[Category: Argasid tick]]
	[[Category: ~~Ornithodoros moubata~~]]		[[Category: Bovin]]
	[[Category: Thrombin]]		[[Category: Thrombin]]
	[[Category: Bode, W]]		[[Category: Bode, W]]

OCA at 13:17, 25 December 2014

2014-12-25T13:17:01Z

← Older revision		Revision as of 13:17, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] and [http://en.wikipedia.org/wiki/Ornithodoros_moubata Ornithodoros moubata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TOC FirstGlance]. <br>		<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] and [http://en.wikipedia.org/wiki/Ornithodoros_moubata Ornithodoros moubata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TOC FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thrombin Thrombin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.5 3.4.21.5] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thrombin Thrombin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.5 3.4.21.5] </span></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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [http://www.ebi.ac.uk/pdbsum/1toc 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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [http://www.ebi.ac.uk/pdbsum/1toc PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/THRB_BOVIN THRB_BOVIN]] Thrombin, which cleaves bonds after Arg and Lys, converts fibrinogen to fibrin and activates factors V, VII, VIII, XIII, and, in complex with thrombomodulin, protein C. Functions in blood homeostasis, inflammation and wound healing (By similarity). [[http://www.uniprot.org/uniprot/ORNT_ORNMO ORNT_ORNMO]] Potent (Ki = 10(-12) M) and highly selective thrombin inhibitor.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	[[Category: Ornithodoros moubata]]		[[Category: Ornithodoros moubata]]
	[[Category: Thrombin]]		[[Category: Thrombin]]
	[[Category: Bode, W.]]		[[Category: Bode, W]]
	[[Category: Huber, R.]]		[[Category: Huber, R]]
	[[Category: Locht, A Van De.]]		[[Category: Locht, A Van De]]
	[[Category: Acute phase]]		[[Category: Acute phase]]
	[[Category: Gamma-carboxyglutamic acid]]		[[Category: Gamma-carboxyglutamic acid]]

OCA at 22:15, 28 September 2014

2014-09-28T22:15:56Z

← Older revision		Revision as of 22:15, 28 September 2014
Line 1:		Line 1:
	[[Image:~~1toc~~.~~png~~\|~~left~~\|~~200px~~]]		==STRUCTURE OF SERINE PROTEINASE==
			<StructureSection load='1toc' size='340' side='right' caption='[[1toc]], [[Resolution\|resolution]] 3.10Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[1toc]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] and [http://en.wikipedia.org/wiki/Ornithodoros_moubata Ornithodoros moubata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TOC FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thrombin Thrombin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.5 3.4.21.5] </span></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=1toc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1toc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1toc RCSB], [http://www.ebi.ac.uk/pdbsum/1toc 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/to/1toc_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 ==
			Ornithodorin, isolated from the blood sucking soft tick Ornithodoros moubata, is a potent (Ki = 10(-12) M) and highly selective thrombin inhibitor. Internal sequence homology indicates a two domain protein. Each domain resembles the Kunitz inhibitor basic pancreatic trypsin inhibitor (BPTI) and also the tick anticoagulant peptide (TAP) isolated from the same organism. The 3.1 A crystal structure of the ornithodorin-thrombin complex confirms that both domains of ornithodorin exhibit a distorted BPTI-like fold. The N-terminal portion and the C-terminal helix of each domain are structurally very similar to BPTI, whereas the regions corresponding to the binding loop of BPTI adopt different conformations. Neither of the two 'reactive site loops' of ornithodorin contacts the protease in the ornithodorin-thrombin complex. Instead, the N-terminal residues of ornithodorin bind to the active site of thrombin, reminiscent of the thrombin-hirudin interaction. The C-terminal domain binds at the fibrinogen recognition exosite. Molecular recognition of its target protease by this double-headed Kunitz-type inhibitor diverges considerably from other members of this intensely studied superfamily. The complex structure provides a model to explain the perplexing results of mutagenesis studies on the TAP-factor Xa interaction.

	~~{{STRUCTURE_1toc\| PDB=1toc \| SCENE= }}~~		The ornithodorin-thrombin crystal structure, a key to the TAP enigma?,van de Locht A, Stubbs MT, Bode W, Friedrich T, Bollschweiler C, Hoffken W, Huber R EMBO J. 1996 Nov 15;15(22):6011-7. PMID:8947023<ref>PMID:8947023</ref>

	~~===STRUCTURE OF SERINE PROTEINASE===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_8947023}}~~

	~~==About this Structure==~~
	~~[[1toc]] is~~ a ~~12 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] and [http://en~~.~~wikipedia~~.~~org/wiki/Ornithodoros_moubata Ornithodoros moubata]~~. ~~Full crystallographic information is available from [http://oca.weizmann.ac.il~~/~~oca-bin/ocashort?id=1TOC OCA].~~

	==See Also==		==See Also==
	*[[Thrombin\|Thrombin]]		*[[Thrombin\|Thrombin]]
			== References ==
	==~~Reference~~==		<references/>
	<~~ref group="xtra">PMID:008947023<~~/~~ref~~><~~ref group="xtra">PMID:016673263</ref><references group="xtra"~~/>		__TOC__
			</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Ornithodoros moubata]]		[[Category: Ornithodoros moubata]]

OCA at 17:08, 20 October 2012

2012-10-20T17:08:12Z

← Older revision		Revision as of 17:08, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[1toc]] is a 12 chain structure ~~of [[Thrombin]]~~ with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] and [http://en.wikipedia.org/wiki/Ornithodoros_moubata Ornithodoros moubata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA].		[[1toc]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] and [http://en.wikipedia.org/wiki/Ornithodoros_moubata Ornithodoros moubata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TOC OCA].

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

OCA: Protected "1toc" [edit=sysop:move=sysop]

2012-07-26T23:56:22Z

Protected "1toc" [edit=sysop:move=sysop]

← Older revision	Revision as of 23:56, 26 July 2012
(No difference)