1qrf - Revision history

OCA at 08:16, 14 February 2024

2024-02-14T08:16:36Z

← Older revision		Revision as of 08:16, 14 February 2024
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	<StructureSection load='1qrf' size='340' side='right'caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='1qrf' size='340' side='right'caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Dsm_1825 Dsm 1825~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QRF FirstGlance]. <br>		<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanosarcina_thermophila Methanosarcina thermophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QRF FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CO:COBALT+(II)+ION'>CO</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]] 1.55Å</td></tr>
	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height~~: ~~3em;~~'>~~[[1thj\|1thj]], [[1qq0\|1qq0]], [[1qqe\|1qqe]], [[1qrg\|1qrg]], [[1qrl\|1qrl]], [[1qrm\|1qrm]]~~</~~div~~></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [https://pdbe.org/1qrf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [https://www.ebi.ac.uk/pdbsum/1qrf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qrf 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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [https://pdbe.org/1qrf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [https://www.ebi.ac.uk/pdbsum/1qrf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qrf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/~~CAH_METTE CAH_METTE]~~] Reversible hydration of carbon dioxide. ~~Essential~~ to ~~photosynthetic carbon dioxide fixation~~.		[https://www.uniprot.org/uniprot/CAH_METTT CAH_METTT] Reversible hydration of carbon dioxide. Important for growth on acetate (PubMed:8041719). As a probably extracellular enzyme, it may support a H(+)/CH(3)COO(-) symport mechanism and/or conversion of CO(2) to HCO(3)(-), removing excess CO(2) produced by growth on acetate (Probable).<ref>PMID:8041719</ref> <ref>PMID:10924115</ref> <ref>PMID:8041719</ref> <ref>PMID:8665839</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=1qrf 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=1qrf ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	The prototype of the gamma-class of carbonic anhydrase has been characterized from the methanogenic archaeon Methanosarcina thermophila. Previously reported kinetic studies of the gamma-class carbonic anhydrase are consistent with this enzyme having a reaction mechanism similar to that of the mammalian alpha-class carbonic anhydrase. However, the overall folds of these two enzymes are dissimilar, and apart from the zinc-coordinating histidines, the active site residues bear little resemblance to one another. The crystal structures of zinc-containing and cobalt-substituted gamma-class carbonic anhydrases from M. thermophila are reported here between 1.46 and 1.95 A resolution in the unbound form and cocrystallized with either SO(4)(2)(-) or HCO(3)(-). Relative to the tetrahedral coordination geometry seen at the active site in the alpha-class of carbonic anhydrases, the active site of the gamma-class enzyme contains additional metal-bound water ligands, so the overall coordination geometry is trigonal bipyramidal for the zinc-containing enzyme and octahedral for the cobalt-substituted enzyme. Ligands bound to the active site all make contacts with the side chain of Glu 62 in manners that suggest the side chain is likely protonated. In the uncomplexed zinc-containing enzyme, the side chains of Glu 62 and Glu 84 appear to share a proton; additionally, Glu 84 exhibits multiple conformations. This suggests that Glu 84 may act as a proton shuttle, which is an important aspect of the reaction mechanism of alpha-class carbonic anhydrases. A hydrophobic pocket on the surface of the enzyme may participate in the trapping of CO(2) at the active site. On the basis of the coordination geometry at the active site, ligand binding modes, the behavior of the side chains of Glu 62 and Glu 84, and analogies to the well-characterized alpha-class of carbonic anhydrases, a more-defined reaction mechanism is proposed for the gamma-class of carbonic anhydrases.

	A closer look at the active site of gamma-class carbonic anhydrases: high-resolution crystallographic studies of the carbonic anhydrase from Methanosarcina thermophila.,Iverson TM, Alber BE, Kisker C, Ferry JG, Rees DC Biochemistry. 2000 Aug 8;39(31):9222-31. PMID:10924115<ref>PMID:10924115</ref>

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

	==See Also==		==See Also==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Dsm 1825]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Alber, B E~~]]		[[Category: Methanosarcina thermophila]]
	[[Category: ~~Ferry, J G~~]]		[[Category: Alber BE]]
	[[Category: ~~Iverson, T M~~]]		[[Category: Ferry JG]]
	[[Category: ~~Kisker, C~~]]		[[Category: Iverson TM]]
	[[Category: ~~Rees, D~~ C]]		[[Category: Kisker C]]
	[[Category: ~~Beta-helix]]~~		[[Category: Rees DC]]
	~~[[Category: Lyase~~]]

OCA at 10:02, 15 September 2021

2021-09-15T10:02:11Z

← Older revision		Revision as of 10:02, 15 September 2021
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	<StructureSection load='1qrf' size='340' side='right'caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='1qrf' size='340' side='right'caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Dsm_1825 Dsm 1825]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1QRF FirstGlance]. <br>		<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dsm_1825 Dsm 1825]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QRF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</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=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1thj\|1thj]], [[1qq0\|1qq0]], [[1qqe\|1qqe]], [[1qrg\|1qrg]], [[1qrl\|1qrl]], [[1qrm\|1qrm]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1thj\|1thj]], [[1qq0\|1qq0]], [[1qqe\|1qqe]], [[1qrg\|1qrg]], [[1qrl\|1qrl]], [[1qrm\|1qrm]]</div></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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [~~http~~://pdbe.org/1qrf PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1qrf PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1qrf 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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [https://pdbe.org/1qrf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [https://www.ebi.ac.uk/pdbsum/1qrf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qrf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/CAH_METTE CAH_METTE]] Reversible hydration of carbon dioxide. Essential to photosynthetic carbon dioxide fixation.		[[https://www.uniprot.org/uniprot/CAH_METTE CAH_METTE]] Reversible hydration of carbon dioxide. Essential to photosynthetic carbon dioxide fixation.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 11:17, 4 December 2019

2019-12-04T11:17:05Z

← Older revision		Revision as of 11:17, 4 December 2019
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	==A CLOSER LOOK AT THE ACTIVE SITE OF GAMMA-CARBONIC ANHYDRASES: HIGH RESOLUTION CRYSTALLOGRAPHIC STUDIES OF THE CARBONIC ANHYDRASE FROM METHANOSARCINA THERMOPHILA==		==A CLOSER LOOK AT THE ACTIVE SITE OF GAMMA-CARBONIC ANHYDRASES: HIGH RESOLUTION CRYSTALLOGRAPHIC STUDIES OF THE CARBONIC ANHYDRASE FROM METHANOSARCINA THERMOPHILA==
	<StructureSection load='1qrf' size='340' side='right' caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='1qrf' size='340' side='right'caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dsm_1825 Dsm 1825]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QRF FirstGlance]. <br>		<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dsm_1825 Dsm 1825]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QRF FirstGlance]. <br>
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	</div>		</div>
	<div class="pdbe-citations 1qrf" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1qrf" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Carbonic anhydrase 3D structures\|Carbonic anhydrase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Dsm 1825]]		[[Category: Dsm 1825]]
			[[Category: Large Structures]]
	[[Category: Alber, B E]]		[[Category: Alber, B E]]
	[[Category: Ferry, J G]]		[[Category: Ferry, J G]]

OCA at 07:42, 28 February 2018

2018-02-28T07:42:09Z

← Older revision		Revision as of 07:42, 28 February 2018
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	==A CLOSER LOOK AT THE ACTIVE SITE OF GAMMA-CARBONIC ANHYDRASES: HIGH RESOLUTION CRYSTALLOGRAPHIC STUDIES OF THE CARBONIC ANHYDRASE FROM METHANOSARCINA THERMOPHILA==		==A CLOSER LOOK AT THE ACTIVE SITE OF GAMMA-CARBONIC ANHYDRASES: HIGH RESOLUTION CRYSTALLOGRAPHIC STUDIES OF THE CARBONIC ANHYDRASE FROM METHANOSARCINA THERMOPHILA==
	<StructureSection load='1qrf' size='340' side='right' caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='1qrf' size='340' side='right' caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</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"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1thj\|1thj]], [[1qq0\|1qq0]], [[1qqe\|1qqe]], [[1qrg\|1qrg]], [[1qrl\|1qrl]], [[1qrm\|1qrm]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1thj\|1thj]], [[1qq0\|1qq0]], [[1qqe\|1qqe]], [[1qrg\|1qrg]], [[1qrl\|1qrl]], [[1qrm\|1qrm]]</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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [http://pdbe.org/1qrf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [http://www.ebi.ac.uk/pdbsum/1qrf 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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [http://pdbe.org/1qrf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [http://www.ebi.ac.uk/pdbsum/1qrf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1qrf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qr/1qrf_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qr/1qrf_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>
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	</div>		</div>
	<div class="pdbe-citations 1qrf" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1qrf" style="background-color:#fffaf0;"></div>

	~~==See Also==~~
	*[[Carbonic anhydrase\|Carbonic anhydrase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:17, 7 February 2016

2016-02-07T18:17:48Z

← Older revision		Revision as of 18:17, 7 February 2016
Line 17:		Line 17:
	<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=1qrf ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 03:58, 10 September 2015

2015-09-10T03:58:32Z

← Older revision		Revision as of 03:58, 10 September 2015
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	<StructureSection load='1qrf' size='340' side='right' caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='1qrf' size='340' side='right' caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Methanosarcina_thermophila Methanosarcina thermophila~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QRF FirstGlance]. <br>		<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dsm_1825 Dsm 1825]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QRF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</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"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1thj\|1thj]], [[1qq0\|1qq0]], [[1qqe\|1qqe]], [[1qrg\|1qrg]], [[1qrl\|1qrl]], [[1qrm\|1qrm]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1thj\|1thj]], [[1qq0\|1qq0]], [[1qqe\|1qqe]], [[1qrg\|1qrg]], [[1qrl\|1qrl]], [[1qrm\|1qrm]]</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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [http://www.ebi.ac.uk/pdbsum/1qrf 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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [http://pdbe.org/1qrf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [http://www.ebi.ac.uk/pdbsum/1qrf PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	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 1qrf" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Methanosarcina thermophila~~]]		[[Category: Dsm 1825]]
	[[Category: Alber, B E]]		[[Category: Alber, B E]]
	[[Category: Ferry, J G]]		[[Category: Ferry, J G]]

OCA at 17:22, 24 December 2014

2014-12-24T17:22:27Z

← Older revision		Revision as of 17:22, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanosarcina_thermophila Methanosarcina thermophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QRF FirstGlance]. <br>		<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanosarcina_thermophila Methanosarcina thermophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QRF FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1thj\|1thj]], [[1qq0\|1qq0]], [[1qqe\|1qqe]], [[1qrg\|1qrg]], [[1qrl\|1qrl]], [[1qrm\|1qrm]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1thj\|1thj]], [[1qq0\|1qq0]], [[1qqe\|1qqe]], [[1qrg\|1qrg]], [[1qrl\|1qrl]], [[1qrm\|1qrm]]</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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [http://www.ebi.ac.uk/pdbsum/1qrf 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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [http://www.ebi.ac.uk/pdbsum/1qrf PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/CAH_METTE CAH_METTE]] Reversible hydration of carbon dioxide. Essential to photosynthetic carbon dioxide fixation.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Methanosarcina thermophila]]		[[Category: Methanosarcina thermophila]]
	[[Category: Alber, B E.]]		[[Category: Alber, B E]]
	[[Category: Ferry, J G.]]		[[Category: Ferry, J G]]
	[[Category: Iverson, T M.]]		[[Category: Iverson, T M]]
	[[Category: Kisker, C.]]		[[Category: Kisker, C]]
	[[Category: Rees, D C.]]		[[Category: Rees, D C]]
	[[Category: Beta-helix]]		[[Category: Beta-helix]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 19:24, 28 September 2014

2014-09-28T19:24:24Z

← Older revision		Revision as of 19:24, 28 September 2014
Line 1:		Line 1:
	[[Image:~~1qrf~~.~~png~~\|~~left~~\|~~200px~~]]		==A CLOSER LOOK AT THE ACTIVE SITE OF GAMMA-CARBONIC ANHYDRASES: HIGH RESOLUTION CRYSTALLOGRAPHIC STUDIES OF THE CARBONIC ANHYDRASE FROM METHANOSARCINA THERMOPHILA==
			<StructureSection load='1qrf' size='340' side='right' caption='[[1qrf]], [[Resolution\|resolution]] 1.55Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[1qrf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanosarcina_thermophila Methanosarcina thermophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QRF FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1thj\|1thj]], [[1qq0\|1qq0]], [[1qqe\|1qqe]], [[1qrg\|1qrg]], [[1qrl\|1qrl]], [[1qrm\|1qrm]]</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=1qrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qrf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1qrf RCSB], [http://www.ebi.ac.uk/pdbsum/1qrf 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/qr/1qrf_consurf.spt"</scriptWhenChecked>
			<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
			<text>to colour the structure by Evolutionary Conservation</text>
			</jmolCheckbox>
			</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
			<div style="clear:both"></div>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The prototype of the gamma-class of carbonic anhydrase has been characterized from the methanogenic archaeon Methanosarcina thermophila. Previously reported kinetic studies of the gamma-class carbonic anhydrase are consistent with this enzyme having a reaction mechanism similar to that of the mammalian alpha-class carbonic anhydrase. However, the overall folds of these two enzymes are dissimilar, and apart from the zinc-coordinating histidines, the active site residues bear little resemblance to one another. The crystal structures of zinc-containing and cobalt-substituted gamma-class carbonic anhydrases from M. thermophila are reported here between 1.46 and 1.95 A resolution in the unbound form and cocrystallized with either SO(4)(2)(-) or HCO(3)(-). Relative to the tetrahedral coordination geometry seen at the active site in the alpha-class of carbonic anhydrases, the active site of the gamma-class enzyme contains additional metal-bound water ligands, so the overall coordination geometry is trigonal bipyramidal for the zinc-containing enzyme and octahedral for the cobalt-substituted enzyme. Ligands bound to the active site all make contacts with the side chain of Glu 62 in manners that suggest the side chain is likely protonated. In the uncomplexed zinc-containing enzyme, the side chains of Glu 62 and Glu 84 appear to share a proton; additionally, Glu 84 exhibits multiple conformations. This suggests that Glu 84 may act as a proton shuttle, which is an important aspect of the reaction mechanism of alpha-class carbonic anhydrases. A hydrophobic pocket on the surface of the enzyme may participate in the trapping of CO(2) at the active site. On the basis of the coordination geometry at the active site, ligand binding modes, the behavior of the side chains of Glu 62 and Glu 84, and analogies to the well-characterized alpha-class of carbonic anhydrases, a more-defined reaction mechanism is proposed for the gamma-class of carbonic anhydrases.

	~~{{STRUCTURE_1qrf\| PDB=1qrf \| SCENE= }}~~		A closer look at the active site of gamma-class carbonic anhydrases: high-resolution crystallographic studies of the carbonic anhydrase from Methanosarcina thermophila.,Iverson TM, Alber BE, Kisker C, Ferry JG, Rees DC Biochemistry. 2000 Aug 8;39(31):9222-31. PMID:10924115<ref>PMID:10924115</ref>

	~~===A CLOSER LOOK AT THE ACTIVE SITE OF GAMMA-CARBONIC ANHYDRASES: HIGH RESOLUTION CRYSTALLOGRAPHIC STUDIES OF THE CARBONIC ANHYDRASE FROM METHANOSARCINA THERMOPHILA===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_10924115}}~~

	~~==About this Structure==~~
	~~[[1qrf]] is~~ a ~~1 chain structure with sequence from [http://en.wikipedia~~.~~org/wiki/Methanosarcina_thermophila Methanosarcina thermophila]~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann.ac.il/oca-bin~~/~~ocashort?id=1QRF OCA].~~

	==See Also==		==See Also==
	*[[Carbonic anhydrase\|Carbonic anhydrase]]		*[[Carbonic anhydrase\|Carbonic anhydrase]]
			== References ==
	==~~Reference~~==		<references/>
	<~~ref group="xtra">PMID:010924115<~~/~~ref~~><~~references group="xtra"~~/>		__TOC__
			</StructureSection>
	[[Category: Methanosarcina thermophila]]		[[Category: Methanosarcina thermophila]]
	[[Category: Alber, B E.]]		[[Category: Alber, B E.]]

OCA at 07:29, 20 October 2012

2012-10-20T07:29:57Z

← Older revision		Revision as of 07:29, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[1qrf]] is a 1 chain structure ~~of [[Carbonic anhydrase]]~~ with sequence from [http://en.wikipedia.org/wiki/Methanosarcina_thermophila Methanosarcina thermophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA].		[[1qrf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanosarcina_thermophila Methanosarcina thermophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QRF OCA].

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

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

2012-07-25T16:30:55Z

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

← Older revision	Revision as of 16:30, 25 July 2012
(No difference)