3h4p - Revision history

OCA at 09:58, 21 February 2024

OCA — Wed, 21 Feb 2024 09:58:02 GMT

←Older revision		Revision as of 09:58, 21 February 2024
Line 3:		Line 3:
	<StructureSection load='3h4p' size='340' side='right'caption='[[3h4p]], [[Resolution\|resolution]] 4.10Å' scene=''>		<StructureSection load='3h4p' size='340' side='right'caption='[[3h4p]], [[Resolution\|resolution]] 4.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3h4p]] is a 28 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_43067 Atcc 43067~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H4P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3H4P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3h4p]] is a 28 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H4P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3H4P FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[3h43\|3h43]], [[3h4m\|3h4m]]</div></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]] 4.1Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]</b></td><td class="sblockDat">psmA, MJ0591 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067]), psmB, MJ1237 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Proteasome_endopeptidase_complex Proteasome endopeptidase complex], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4~~.25~~.1 ~~3.4.25.1] </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=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [https://pdbe.org/3h4p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [https://www.ebi.ac.uk/pdbsum/3h4p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3h4p 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=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [https://pdbe.org/3h4p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [https://www.ebi.ac.uk/pdbsum/3h4p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3h4p ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PSA_METJA PSA_METJA]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.[HAMAP-Rule:MF_00289]<ref>PMID:10692374</ref> [[https://www.uniprot.org/uniprot/PSB_METJA PSB_METJA]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.[HAMAP-Rule:MF_02113]<ref>PMID:10692374</ref>	+	[https://www.uniprot.org/uniprot/PSA_METJA PSA_METJA] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.[HAMAP-Rule:MF_00289]<ref>PMID:10692374</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3h4p 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=3h4p ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Eukaryotic proteasome consists of a core particle (CP), which degrades unfolded protein, and a regulatory particle (RP), which is responsible for recognition, ATP-dependent unfolding, and translocation of polyubiquitinated substrate protein. In the archaea Methanocaldococcus jannaschii, the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). Here, we report the crystal structures of essential elements of the archaeal proteasome: the CP, the ATPase domain of PAN, and a distal subcomplex that is likely the first to encounter substrate. The distal subcomplex contains a coiled-coil segment and an OB-fold domain, both of which appear to be conserved in the eukaryotic proteasome. The OB domains of PAN form a hexameric ring with a 13 A pore, which likely constitutes the outermost constriction of the substrate translocation channel. These studies reveal structural codes and architecture of the complete proteasome, identify potential substrate-binding sites, and uncover unexpected asymmetry in the RP of archaea and eukaryotes.
-
-	Structural insights into the regulatory particle of the proteasome from Methanocaldococcus jannaschii.,Zhang F, Hu M, Tian G, Zhang P, Finley D, Jeffrey PD, Shi Y Mol Cell. 2009 May 14;34(4):473-84. PMID:19481527<ref>PMID:19481527</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3h4p" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 37:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 43067]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Proteasome endopeptidase complex~~]]	+	[[Category: Methanocaldococcus jannaschii]]
-	[[Category: Finley, D]]	+	[[Category: Finley D]]
-	[[Category: Hu, M]]	+	[[Category: Hu M]]
-	[[Category: Jeffrey~~, P D~~]]	+	[[Category: Jeffrey PD]]
-	[[Category: Shi, Y]]	+	[[Category: Shi Y]]
-	[[Category: Tian, G]]	+	[[Category: Tian G]]
-	[[Category: Zhang, F]]	+	[[Category: Zhang F]]
-	[[Category: Zhang, P]]	+	[[Category: Zhang P]]
-	~~[[Category: Core particle]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Protease]]~~	+
-	~~[[Category: Proteasome]]~~	+
-	~~[[Category: Threonine protease~~]]	+

OCA at 08:02, 16 March 2022

OCA — Wed, 16 Mar 2022 08:02:59 GMT

←Older revision		Revision as of 08:02, 16 March 2022
Line 1:		Line 1:
-	~~{{Large structure}}~~	+
	==Proteasome 20S core particle from Methanocaldococcus jannaschii==		==Proteasome 20S core particle from Methanocaldococcus jannaschii==
-	<StructureSection load='3h4p' size='340' side='right' caption='[[3h4p]], [[Resolution\|resolution]] 4.10Å' scene=''>	+	<StructureSection load='3h4p' size='340' side='right'caption='[[3h4p]], [[Resolution\|resolution]] 4.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3h4p]] is a 28 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_43067 Atcc 43067]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H4P OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3H4P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3h4p]] is a 28 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43067 Atcc 43067]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H4P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3H4P FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3h43\|3h43]], [[3h4m\|3h4m]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3h43\|3h43]], [[3h4m\|3h4m]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">psmA, MJ0591 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067]), psmB, MJ1237 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">psmA, MJ0591 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067]), psmB, MJ1237 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Proteasome_endopeptidase_complex Proteasome endopeptidase complex], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.25.1 3.4.25.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Proteasome_endopeptidase_complex Proteasome endopeptidase complex], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.25.1 3.4.25.1] </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=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [~~http~~://pdbe.org/3h4p PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3h4p PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3h4p 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=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [https://pdbe.org/3h4p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [https://www.ebi.ac.uk/pdbsum/3h4p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3h4p ProSAT]</span></td></tr>
	</table>		</table>
-	{{Large structure}}
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PSA_METJA PSA_METJA]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.[HAMAP-Rule:MF_00289]<ref>PMID:10692374</ref> [[~~http~~://www.uniprot.org/uniprot/PSB_METJA PSB_METJA]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.[HAMAP-Rule:MF_02113]<ref>PMID:10692374</ref>	+	[[https://www.uniprot.org/uniprot/PSA_METJA PSA_METJA]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.[HAMAP-Rule:MF_00289]<ref>PMID:10692374</ref> [[https://www.uniprot.org/uniprot/PSB_METJA PSB_METJA]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.[HAMAP-Rule:MF_02113]<ref>PMID:10692374</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 32:

	==See Also==		==See Also==
-	*[[Proteasome\|Proteasome]]	+	*[[Proteasome 3D structures\|Proteasome 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 39:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 43067]]		[[Category: Atcc 43067]]
		+	[[Category: Large Structures]]
	[[Category: Proteasome endopeptidase complex]]		[[Category: Proteasome endopeptidase complex]]
	[[Category: Finley, D]]		[[Category: Finley, D]]

OCA at 05:36, 7 December 2018

OCA — Fri, 07 Dec 2018 05:36:28 GMT

←Older revision		Revision as of 05:36, 7 December 2018
Line 7:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">psmA, MJ0591 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067]), psmB, MJ1237 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">psmA, MJ0591 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067]), psmB, MJ1237 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proteasome_endopeptidase_complex Proteasome endopeptidase complex], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.25.1 3.4.25.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proteasome_endopeptidase_complex Proteasome endopeptidase complex], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.25.1 3.4.25.1] </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=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [http://pdbe.org/3h4p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [http://www.ebi.ac.uk/pdbsum/3h4p 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=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [http://pdbe.org/3h4p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [http://www.ebi.ac.uk/pdbsum/3h4p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3h4p ProSAT]</span></td></tr>
	</table>		</table>
	{{Large structure}}		{{Large structure}}
Line 16:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/h4/3h4p_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/h4/3h4p_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 20:01, 9 March 2016

OCA — Wed, 09 Mar 2016 20:01:32 GMT

←Older revision		Revision as of 20:01, 9 March 2016
Line 1:		Line 1:
		+	{{Large structure}}
	==Proteasome 20S core particle from Methanocaldococcus jannaschii==		==Proteasome 20S core particle from Methanocaldococcus jannaschii==
	<StructureSection load='3h4p' size='340' side='right' caption='[[3h4p]], [[Resolution\|resolution]] 4.10Å' scene=''>		<StructureSection load='3h4p' size='340' side='right' caption='[[3h4p]], [[Resolution\|resolution]] 4.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3h4p]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Methanocaldococcus_jannaschii Methanocaldococcus jannaschii~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H4P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3H4P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3h4p]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43067 Atcc 43067]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H4P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3H4P FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3h43\|3h43]], [[3h4m\|3h4m]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3h43\|3h43]], [[3h4m\|3h4m]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">psmA, MJ0591 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ~~Methanocaldococcus jannaschii~~]), psmB, MJ1237 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ~~Methanocaldococcus jannaschii~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">psmA, MJ0591 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067]), psmB, MJ1237 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proteasome_endopeptidase_complex Proteasome endopeptidase complex], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.25.1 3.4.25.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proteasome_endopeptidase_complex Proteasome endopeptidase complex], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.25.1 3.4.25.1] </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=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [http://www.ebi.ac.uk/pdbsum/3h4p 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=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [http://pdbe.org/3h4p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [http://www.ebi.ac.uk/pdbsum/3h4p PDBsum]</span></td></tr>
	</table>		</table>
		+	{{Large structure}}
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~PSMA_METJA PSMA_METJA~~]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.<ref>PMID:10692374</ref> [[http://www.uniprot.org/uniprot/~~PSMB_METJA PSMB_METJA~~]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.<ref>PMID:10692374</ref>	+	[[http://www.uniprot.org/uniprot/PSA_METJA PSA_METJA]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.[HAMAP-Rule:MF_00289]<ref>PMID:10692374</ref> [[http://www.uniprot.org/uniprot/PSB_METJA PSB_METJA]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.[HAMAP-Rule:MF_02113]<ref>PMID:10692374</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 18:		Line 20:
	<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=3h4p ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 30:
	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 3h4p" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 38:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Methanocaldococcus jannaschii~~]]	+	[[Category: Atcc 43067]]
	[[Category: Proteasome endopeptidase complex]]		[[Category: Proteasome endopeptidase complex]]
	[[Category: Finley, D]]		[[Category: Finley, D]]

OCA at 17:17, 25 December 2014

OCA — Thu, 25 Dec 2014 17:17:16 GMT

←Older revision		Revision as of 17:17, 25 December 2014
Line 8:		Line 8:
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [http://www.ebi.ac.uk/pdbsum/3h4p 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=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [http://www.ebi.ac.uk/pdbsum/3h4p PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PSMA_METJA PSMA_METJA]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.<ref>PMID:10692374</ref> [[http://www.uniprot.org/uniprot/PSMB_METJA PSMB_METJA]] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The M.jannaschii proteasome is able to cleave oligopeptides after Glu, Asp, Tyr, Phe, Trp, slightly after Arg, but not after Ala. Thus, displays caspase-like and chymotrypsin-like activities and low level of trypsin-like activity.<ref>PMID:10692374</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 06:39, 18 December 2014

OCA — Thu, 18 Dec 2014 06:39:11 GMT

←Older revision		Revision as of 06:39, 18 December 2014
Line 1:		Line 1:
-	~~{{Large structure}}~~	+	==Proteasome 20S core particle from Methanocaldococcus jannaschii==
-	~~{{STRUCTURE_3h4p\| PDB~~=3h4p \| ~~SCENE~~= }}	+	<StructureSection load='3h4p' size='340' side='right' caption='[[3h4p]], [[Resolution\|resolution]] 4.10Å' scene=''>
-	===~~Proteasome 20S core particle~~ from Methanocaldococcus jannaschii===	+	== Structural highlights ==
-	~~{{ABSTRACT_PUBMED_19481527}}~~	+	<table><tr><td colspan='2'>[[3h4p]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H4P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3H4P FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3h43\|3h43]], [[3h4m\|3h4m]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">psmA, MJ0591 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 Methanocaldococcus jannaschii]), psmB, MJ1237 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 Methanocaldococcus jannaschii])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proteasome_endopeptidase_complex Proteasome endopeptidase complex], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.25.1 3.4.25.1] </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=3h4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h4p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3h4p RCSB], [http://www.ebi.ac.uk/pdbsum/3h4p 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/h4/3h4p_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 ==
		+	Eukaryotic proteasome consists of a core particle (CP), which degrades unfolded protein, and a regulatory particle (RP), which is responsible for recognition, ATP-dependent unfolding, and translocation of polyubiquitinated substrate protein. In the archaea Methanocaldococcus jannaschii, the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). Here, we report the crystal structures of essential elements of the archaeal proteasome: the CP, the ATPase domain of PAN, and a distal subcomplex that is likely the first to encounter substrate. The distal subcomplex contains a coiled-coil segment and an OB-fold domain, both of which appear to be conserved in the eukaryotic proteasome. The OB domains of PAN form a hexameric ring with a 13 A pore, which likely constitutes the outermost constriction of the substrate translocation channel. These studies reveal structural codes and architecture of the complete proteasome, identify potential substrate-binding sites, and uncover unexpected asymmetry in the RP of archaea and eukaryotes.

-	~~==About this Structure==~~	+	Structural insights into the regulatory particle of the proteasome from Methanocaldococcus jannaschii.,Zhang F, Hu M, Tian G, Zhang P, Finley D, Jeffrey PD, Shi Y Mol Cell. 2009 May 14;34(4):473-84. PMID:19481527<ref>PMID:19481527</ref>
-	~~[[3h4p]] is a 28 chain structure with sequence~~ from ~~[http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii~~ Methanocaldococcus jannaschii]. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=3H4P OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
	*[[Proteasome\|Proteasome]]		*[[Proteasome\|Proteasome]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019481527<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Methanocaldococcus jannaschii]]		[[Category: Methanocaldococcus jannaschii]]
	[[Category: Proteasome endopeptidase complex]]		[[Category: Proteasome endopeptidase complex]]
-	[[Category: Finley, D.]]	+	[[Category: Finley, D]]
-	[[Category: Hu, M.]]	+	[[Category: Hu, M]]
-	[[Category: Jeffrey, P D.]]	+	[[Category: Jeffrey, P D]]
-	[[Category: Shi, Y.]]	+	[[Category: Shi, Y]]
-	[[Category: Tian, G.]]	+	[[Category: Tian, G]]
-	[[Category: Zhang, F.]]	+	[[Category: Zhang, F]]
-	[[Category: Zhang, P~~.]]~~	+	[[Category: Zhang, P]]
-	~~[[Category: 20~~]]	+
	[[Category: Core particle]]		[[Category: Core particle]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 08:08, 11 March 2013

OCA — Mon, 11 Mar 2013 08:08:56 GMT

←Older revision		Revision as of 08:08, 11 March 2013
Line 1:		Line 1:
-	~~[[Image:3h4p.png\|left\|200px]]~~	+	{{Large structure}}
-		+
	{{STRUCTURE_3h4p\| PDB=3h4p \| SCENE= }}		{{STRUCTURE_3h4p\| PDB=3h4p \| SCENE= }}
-
	===Proteasome 20S core particle from Methanocaldococcus jannaschii===		===Proteasome 20S core particle from Methanocaldococcus jannaschii===
-
	{{ABSTRACT_PUBMED_19481527}}		{{ABSTRACT_PUBMED_19481527}}

OCA at 19:21, 20 October 2012

OCA — Sat, 20 Oct 2012 19:21:33 GMT

←Older revision		Revision as of 19:21, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3h4p]] is a 28 chain structure ~~of [[Proteasome]]~~ with sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H4P OCA].	+	[[3h4p]] is a 28 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H4P OCA].

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

OCA at 07:06, 27 July 2012

OCA — Fri, 27 Jul 2012 07:06:09 GMT

←Older revision		Revision as of 07:06, 27 July 2012
Line 1:		Line 1:
	[[Image:3h4p.png\|left\|200px]]		[[Image:3h4p.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3h4p", 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_3h4p\| PDB=3h4p \| SCENE= }}		{{STRUCTURE_3h4p\| PDB=3h4p \| SCENE= }}

	===Proteasome 20S core particle from Methanocaldococcus jannaschii===		===Proteasome 20S core particle from Methanocaldococcus jannaschii===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19481527}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19481527 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19481527}}		{{ABSTRACT_PUBMED_19481527}}

Line 22:		Line 11:

	==See Also==		==See Also==
-	*[[Proteasome]]	+	*[[Proteasome\|Proteasome]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19481527~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019481527</ref><references group="xtra"/>
	[[Category: Methanocaldococcus jannaschii]]		[[Category: Methanocaldococcus jannaschii]]
	[[Category: Proteasome endopeptidase complex]]		[[Category: Proteasome endopeptidase complex]]
Line 37:		Line 26:
	[[Category: 20]]		[[Category: 20]]
	[[Category: Core particle]]		[[Category: Core particle]]
-	[[Category: Cytoplasm]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Protease]]		[[Category: Protease]]
	[[Category: Proteasome]]		[[Category: Proteasome]]
	[[Category: Threonine protease]]		[[Category: Threonine protease]]

OCA: Protected "3h4p" [edit=sysop:move=sysop]

OCA — Mon, 27 Dec 2010 00:07:14 GMT

Protected "3h4p" [edit=sysop:move=sysop]

←Older revision

Revision as of 00:07, 27 December 2010