7ktz - Revision history

OCA at 15:31, 18 October 2023

OCA — Wed, 18 Oct 2023 15:31:49 GMT

←Older revision		Revision as of 15:31, 18 October 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7ktz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KTZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KTZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[7ktz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KTZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KTZ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<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]] 2Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[https://en.wikipedia.org/wiki/Chymotrypsin Chymotrypsin], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.1 3.4.21.1]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=7ktz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ktz OCA], [https://pdbe.org/7ktz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ktz RCSB], [https://www.ebi.ac.uk/pdbsum/7ktz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ktz 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=7ktz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ktz OCA], [https://pdbe.org/7ktz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ktz RCSB], [https://www.ebi.ac.uk/pdbsum/7ktz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ktz ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CTRA_BOVIN CTRA_BOVIN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Bos taurus]]		[[Category: Bos taurus]]
-	[[Category: Chymotrypsin]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Andrews~~, L C~~]]	+	[[Category: Andrews LC]]
-	[[Category: Bernstein~~, H J~~]]	+	[[Category: Bernstein HJ]]
-	[[Category: Gabelli~~, S B~~]]	+	[[Category: Gabelli SB]]
-	[[Category: Jakoncic, J]]	+	[[Category: Jakoncic J]]
-	[[Category: Kozakov, D]]	+	[[Category: Kozakov D]]
-	[[Category: Kreitler~~, D F~~]]	+	[[Category: Kreitler DF]]
-	[[Category: Nguyen, T]]	+	[[Category: Nguyen T]]
-	[[Category: Phan~~, K L~~]]	+	[[Category: Phan KL]]
-	[[Category: Soares~~, A S~~]]	+	[[Category: Soares AS]]
-	[[Category: Sweet~~, R M]]~~	+	[[Category: Sweet RM]]
-	~~[[Category: Chymotrypsinogen]]~~	+
-	~~[[Category: Clustering]]~~	+
-	~~[[Category: Data analysis]]~~	+
-	~~[[Category: Dynamic]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 07:17, 16 March 2022

OCA — Wed, 16 Mar 2022 07:17:02 GMT

←Older revision		Revision as of 07:17, 16 March 2022
Line 1:		Line 1:

	==Data clustering and dynamics of chymotrypsinogen cluster 131 (purple) structure==		==Data clustering and dynamics of chymotrypsinogen cluster 131 (purple) structure==
-	<StructureSection load='7ktz' size='340' side='right'caption='[[7ktz]]' scene=''>	+	<StructureSection load='7ktz' size='340' side='right'caption='[[7ktz]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KTZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KTZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ktz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KTZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KTZ FirstGlance]. <br>
-	</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=7ktz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ktz OCA], [https://pdbe.org/7ktz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ktz RCSB], [https://www.ebi.ac.uk/pdbsum/7ktz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ktz ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Chymotrypsin Chymotrypsin], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.1 3.4.21.1] </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=7ktz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ktz OCA], [https://pdbe.org/7ktz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ktz RCSB], [https://www.ebi.ac.uk/pdbsum/7ktz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ktz ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	One often observes small but measurable differences in the diffraction data measured from different crystals of a single protein. These differences might reflect structural differences in the protein and may reveal the natural dynamism of the molecule in solution. Partitioning these mixed-state data into single-state clusters is a critical step that could extract information about the dynamic behavior of proteins from hundreds or thousands of single-crystal data sets. Mixed-state data can be obtained deliberately (through intentional perturbation) or inadvertently (while attempting to measure highly redundant single-crystal data). To the extent that different states adopt different molecular structures, one expects to observe differences in the crystals; each of the polystates will create a polymorph of the crystals. After mixed-state diffraction data have been measured, deliberately or inadvertently, the challenge is to sort the data into clusters that may represent relevant biological polystates. Here, this problem is addressed using a simple multi-factor clustering approach that classifies each data set using independent observables, thereby assigning each data set to the correct location in conformational space. This procedure is illustrated using two independent observables, unit-cell parameters and intensities, to cluster mixed-state data from chymotrypsinogen (ChTg) crystals. It is observed that the data populate an arc of the reaction trajectory as ChTg is converted into chymotrypsin.
		+
		+	A simple technique to classify diffraction data from dynamic proteins according to individual polymorphs.,Nguyen T, Phan KL, Kozakov D, Gabelli SB, Kreitler DF, Andrews LC, Jakoncic J, Sweet RM, Soares AS, Bernstein HJ Acta Crystallogr D Struct Biol. 2022 Mar 1;78(Pt 3):268-277. doi:, 10.1107/S2059798321013425. Epub 2022 Feb 18. PMID:35234141<ref>PMID:35234141</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7ktz" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Chymotrypsin 3D structures\|Chymotrypsin 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bos taurus]]
		+	[[Category: Chymotrypsin]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Andrews LC]]	+	[[Category: Andrews, L C]]
-	[[Category: Bernstein HJ]]	+	[[Category: Bernstein, H J]]
-	[[Category: Gabelli SB]]	+	[[Category: Gabelli, S B]]
-	[[Category: Jakoncic J]]	+	[[Category: Jakoncic, J]]
-	[[Category: Kozakov D]]	+	[[Category: Kozakov, D]]
-	[[Category: Kreitler DF]]	+	[[Category: Kreitler, D F]]
-	[[Category: Nguyen T]]	+	[[Category: Nguyen, T]]
-	[[Category: Phan KL]]	+	[[Category: Phan, K L]]
-	[[Category: Soares AS]]	+	[[Category: Soares, A S]]
-	[[Category: Sweet RM]]	+	[[Category: Sweet, R M]]
		+	[[Category: Chymotrypsinogen]]
		+	[[Category: Clustering]]
		+	[[Category: Data analysis]]
		+	[[Category: Dynamic]]
		+	[[Category: Hydrolase]]

OCA at 17:22, 10 March 2021

OCA — Wed, 10 Mar 2021 17:22:33 GMT

←Older revision		Revision as of 17:22, 10 March 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7ktz ~~is ON HOLD~~	+	==Data clustering and dynamics of chymotrypsinogen cluster 131 (purple) structure==
-		+	<StructureSection load='7ktz' size='340' side='right'caption='[[7ktz]]' scene=''>
-	~~Authors~~: ~~Nguyen, T~~.~~, Phan, K~~.L.~~, Kreitler, D~~.F.~~, Andrews, L~~.C.~~, Gabelli, S~~.B., ~~Kozakov, D~~., ~~Jakoncic, J~~., ~~Sweet, R~~.M., ~~Soares, A~~.S., ~~Bernstein, H~~.J.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KTZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KTZ FirstGlance]. <br>
-	~~Description: Data clustering and dynamics of chymotrypsinogen cluster 131 (purple) structure~~	+	</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=7ktz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ktz OCA], [https://pdbe.org/7ktz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ktz RCSB], [https://www.ebi.ac.uk/pdbsum/7ktz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ktz ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Kreitler, D.F~~]]	+	__TOC__
-	[[Category: ~~Soares, A.S~~]]	+	</StructureSection>
-	[[Category: ~~Phan, K.L~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Bernstein, H.~~J]]	+	[[Category: Andrews LC]]
-	[[Category: ~~Gabelli, S.B~~]]	+	[[Category: Bernstein HJ]]
-	[[Category: ~~Andrews, L.C~~]]	+	[[Category: Gabelli SB]]
-	[[Category: Nguyen, T]]	+	[[Category: Jakoncic J]]
-	[[Category: ~~Sweet, R.M~~]]	+	[[Category: Kozakov D]]
-	[[Category: ~~Kozakov, D~~]]	+	[[Category: Kreitler DF]]
-	[[Category: ~~Jakoncic, J~~]]	+	[[Category: Nguyen T]]
		+	[[Category: Phan KL]]
		+	[[Category: Soares AS]]
		+	[[Category: Sweet RM]]

OCA at 08:01, 24 December 2020

OCA — Thu, 24 Dec 2020 08:01:38 GMT

←Older revision		Revision as of 08:01, 24 December 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7ktz is ON HOLD ~~until sometime in the future~~	+	The entry 7ktz is ON HOLD

	Authors: Nguyen, T., Phan, K.L., Kreitler, D.F., Andrews, L.C., Gabelli, S.B., Kozakov, D., Jakoncic, J., Sweet, R.M., Soares, A.S., Bernstein, H.J.		Authors: Nguyen, T., Phan, K.L., Kreitler, D.F., Andrews, L.C., Gabelli, S.B., Kozakov, D., Jakoncic, J., Sweet, R.M., Soares, A.S., Bernstein, H.J.
Line 7:		Line 7:
	Description: Data clustering and dynamics of chymotrypsinogen cluster 131 (purple) structure		Description: Data clustering and dynamics of chymotrypsinogen cluster 131 (purple) structure
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Kozakov, D]]
-	[[Category: Andrews, L.C]]
-	[[Category: Bernstein, H.J]]
-	[[Category: Nguyen, T]]
	[[Category: Kreitler, D.F]]		[[Category: Kreitler, D.F]]
	[[Category: Soares, A.S]]		[[Category: Soares, A.S]]
	[[Category: Phan, K.L]]		[[Category: Phan, K.L]]
-	[[Category: ~~Jakoncic~~, J]]	+	[[Category: Bernstein, H.J]]
	[[Category: Gabelli, S.B]]		[[Category: Gabelli, S.B]]
		+	[[Category: Andrews, L.C]]
		+	[[Category: Nguyen, T]]
	[[Category: Sweet, R.M]]		[[Category: Sweet, R.M]]
		+	[[Category: Kozakov, D]]
		+	[[Category: Jakoncic, J]]

OCA at 11:12, 16 December 2020

OCA — Wed, 16 Dec 2020 11:12:15 GMT

←Older revision		Revision as of 11:12, 16 December 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7ktz is ON HOLD	+	The entry 7ktz is ON HOLD until sometime in the future

	Authors: Nguyen, T., Phan, K.L., Kreitler, D.F., Andrews, L.C., Gabelli, S.B., Kozakov, D., Jakoncic, J., Sweet, R.M., Soares, A.S., Bernstein, H.J.		Authors: Nguyen, T., Phan, K.L., Kreitler, D.F., Andrews, L.C., Gabelli, S.B., Kozakov, D., Jakoncic, J., Sweet, R.M., Soares, A.S., Bernstein, H.J.

OCA: Protected "7ktz" [edit=sysop:move=sysop]

OCA — Wed, 02 Dec 2020 05:54:09 GMT

Protected "7ktz" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:54, 2 December 2020

OCA: New page: '''Unreleased structure''' The entry 7ktz is ON HOLD Authors: Nguyen, T., Phan, K.L., Kreitler, D.F., Andrews, L.C., Gabelli, S.B., Kozakov, D., Jakoncic, J., Sweet, R.M., Soares, A.S.,...

OCA — Wed, 02 Dec 2020 05:54:07 GMT

New page: '''Unreleased structure''' The entry 7ktz is ON HOLD Authors: Nguyen, T., Phan, K.L., Kreitler, D.F., Andrews, L.C., Gabelli, S.B., Kozakov, D., Jakoncic, J., Sweet, R.M., Soares, A.S.,...

New page

'''Unreleased structure'''

The entry 7ktz is ON HOLD

Authors: Nguyen, T., Phan, K.L., Kreitler, D.F., Andrews, L.C., Gabelli, S.B., Kozakov, D., Jakoncic, J., Sweet, R.M., Soares, A.S., Bernstein, H.J.

Description: Data clustering and dynamics of chymotrypsinogen cluster 131 (purple) structure
[[Category: Unreleased Structures]]
[[Category: Kozakov, D]]
[[Category: Andrews, L.C]]
[[Category: Bernstein, H.J]]
[[Category: Nguyen, T]]
[[Category: Kreitler, D.F]]
[[Category: Soares, A.S]]
[[Category: Phan, K.L]]
[[Category: Jakoncic, J]]
[[Category: Gabelli, S.B]]
[[Category: Sweet, R.M]]