1f4a - Revision history

OCA at 07:10, 7 February 2024

OCA — Wed, 07 Feb 2024 07:10:33 GMT

←Older revision		Revision as of 07:10, 7 February 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F4A FirstGlance]. <br>		<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F4A FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.8Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1bgl\|1bgl]], [[1dp0\|1dp0]], [[1f49\|1f49]], [[1gho\|1gho]], [[1f4h\|1f4h]], [[1hn1\|1hn1]], [[1bgm\|1bgm]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23]~~ </~~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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [https://pdbe.org/1f4a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [https://www.ebi.ac.uk/pdbsum/1f4a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f4a 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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [https://pdbe.org/1f4a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [https://www.ebi.ac.uk/pdbsum/1f4a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f4a ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/BGAL_ECOLI BGAL_ECOLI]
	== 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=1f4a 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=1f4a ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The unrefined fold of Escherichia coli beta-galactosidase based on a monoclinic crystal form with four independent tetramers has been reported previously. Here, we describe a new, orthorhombic form with one tetramer per asymmetric unit that has permitted refinement of the structure at 1.7 A resolution. This high-resolution analysis has confirmed the original description of the structure and revealed new details. An essential magnesium ion, identified at the active site in the monoclinic crystals, is also seen in the orthorhombic form. Additional putative magnesium binding sites are also seen. Sodium ions are also known to affect catalysis, and five putative binding sites have been identified, one close to the active site. In a crevice on the protein surface, five linked five-membered solvent rings form a partial clathrate-like structure. Some other unusual aspects of the structure include seven apparent cis-peptide bonds, four of which are proline, and several internal salt-bridge networks. Deep solvent-filled channels and tunnels extend across the surface of the molecule and pass through the center of the tetramer. Because of these departures from a compact globular shape, the molecule is not well characterized by prior empirical relationships between the mass and surface area of proteins. The 50 or so residues at the amino terminus have a largely extended conformation and mostly lie across the surface of the protein. At the same time, however, segment 13-21 contributes to a subunit interface, and residues 29-33 pass through a "tunnel" formed by a domain interface. Taken together, the overall arrangement provides a structural basis for the phenomenon of alpha-complementation.
-
-	High resolution refinement of beta-galactosidase in a new crystal form reveals multiple metal-binding sites and provides a structural basis for alpha-complementation.,Juers DH, Jacobson RH, Wigley D, Zhang XJ, Huber RE, Tronrud DE, Matthews BW Protein Sci. 2000 Sep;9(9):1685-99. PMID:11045615<ref>PMID:11045615</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1f4a" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Galactosidase 3D structures\|Galactosidase 3D structures]]		*[[Galactosidase 3D structures\|Galactosidase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Beta-galactosidase]]
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Huber~~, R E~~]]	+	[[Category: Huber RE]]
-	[[Category: Jacobson~~, R H~~]]	+	[[Category: Jacobson RH]]
-	[[Category: Juers~~, D H~~]]	+	[[Category: Juers DH]]
-	[[Category: Matthews~~, B W~~]]	+	[[Category: Matthews BW]]
-	[[Category: Tronrud~~, D E~~]]	+	[[Category: Tronrud DE]]
-	[[Category: Wigley, D]]	+	[[Category: Wigley D]]
-	[[Category: Zhang~~, X J]]~~	+	[[Category: Zhang XJ]]
-	~~[[Category: Alpha/beta barrel]]~~	+
-	~~[[Category: Beta supersandwich]]~~	+
-	~~[[Category: Fibronectin]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Jelly roll barrel~~]]	+

OCA at 09:46, 21 July 2021

OCA — Wed, 21 Jul 2021 09:46:12 GMT

←Older revision		Revision as of 09:46, 21 July 2021
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	<StructureSection load='1f4a' size='340' side='right'caption='[[1f4a]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1f4a' size='340' side='right'caption='[[1f4a]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1F4A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F4A FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bgl\|1bgl]], [[1dp0\|1dp0]], [[1f49\|1f49]], [[1gho\|1gho]], [[1f4h\|1f4h]], [[1hn1\|1hn1]], [[1bgm\|1bgm]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1bgl\|1bgl]], [[1dp0\|1dp0]], [[1f49\|1f49]], [[1gho\|1gho]], [[1f4h\|1f4h]], [[1hn1\|1hn1]], [[1bgm\|1bgm]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [~~http~~://pdbe.org/1f4a PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1f4a PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1f4a 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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [https://pdbe.org/1f4a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [https://www.ebi.ac.uk/pdbsum/1f4a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f4a ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 14:36, 16 October 2019

OCA — Wed, 16 Oct 2019 14:36:10 GMT

←Older revision		Revision as of 14:36, 16 October 2019
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	==E. COLI (LACZ) BETA-GALACTOSIDASE (NCS CONSTRAINED MONOMER-ORTHORHOMBIC)==		==E. COLI (LACZ) BETA-GALACTOSIDASE (NCS CONSTRAINED MONOMER-ORTHORHOMBIC)==
-	<StructureSection load='1f4a' size='340' side='right' caption='[[1f4a]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='1f4a' size='340' side='right'caption='[[1f4a]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F4A FirstGlance]. <br>		<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F4A FirstGlance]. <br>
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f4/1f4a_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f4/1f4a_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>
Line 28:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1f4a" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1f4a" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Galactosidase 3D structures\|Galactosidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	[[Category: Beta-galactosidase]]		[[Category: Beta-galactosidase]]
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
		+	[[Category: Large Structures]]
	[[Category: Huber, R E]]		[[Category: Huber, R E]]
	[[Category: Jacobson, R H]]		[[Category: Jacobson, R H]]

OCA at 06:33, 29 November 2017

OCA — Wed, 29 Nov 2017 06:33:34 GMT

←Older revision		Revision as of 06:33, 29 November 2017
Line 1:		Line 1:
		+
	==E. COLI (LACZ) BETA-GALACTOSIDASE (NCS CONSTRAINED MONOMER-ORTHORHOMBIC)==		==E. COLI (LACZ) BETA-GALACTOSIDASE (NCS CONSTRAINED MONOMER-ORTHORHOMBIC)==
	<StructureSection load='1f4a' size='340' side='right' caption='[[1f4a]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1f4a' size='340' side='right' caption='[[1f4a]], [[Resolution\|resolution]] 2.80Å' scene=''>
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	<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F4A FirstGlance]. <br>		<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F4A FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dp0\|1dp0]], [[1f49\|1f49]], [[1gho\|1gho]], [[1f4h\|1f4h]], [[1hn1\|1hn1]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bgl\|1bgl]], [[1dp0\|1dp0]], [[1f49\|1f49]], [[1gho\|1gho]], [[1f4h\|1f4h]], [[1hn1\|1hn1]], [[1bgm\|1bgm]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [http://pdbe.org/1f4a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [http://www.ebi.ac.uk/pdbsum/1f4a 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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [http://pdbe.org/1f4a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [http://www.ebi.ac.uk/pdbsum/1f4a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1f4a ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 1f4a" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1f4a" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Galactosidase\|Galactosidase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 05:47, 7 February 2016

OCA — Sun, 07 Feb 2016 05:47:23 GMT

←Older revision		Revision as of 05:47, 7 February 2016
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	<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=1f4a ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:26, 9 September 2015

OCA — Wed, 09 Sep 2015 22:26:40 GMT

←Older revision		Revision as of 22:26, 9 September 2015
Line 6:		Line 6:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dp0\|1dp0]], [[1f49\|1f49]], [[1gho\|1gho]], [[1f4h\|1f4h]], [[1hn1\|1hn1]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dp0\|1dp0]], [[1f49\|1f49]], [[1gho\|1gho]], [[1f4h\|1f4h]], [[1hn1\|1hn1]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [http://www.ebi.ac.uk/pdbsum/1f4a 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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [http://pdbe.org/1f4a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [http://www.ebi.ac.uk/pdbsum/1f4a PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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 1f4a" style="background-color:#fffaf0;"></div>

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

OCA at 19:57, 22 December 2014

OCA — Mon, 22 Dec 2014 19:57:14 GMT

←Older revision		Revision as of 19:57, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F4A FirstGlance]. <br>		<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F4A FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dp0\|1dp0]], [[1f49\|1f49]], [[1gho\|1gho]], [[1f4h\|1f4h]], [[1hn1\|1hn1]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dp0\|1dp0]], [[1f49\|1f49]], [[1gho\|1gho]], [[1f4h\|1f4h]], [[1hn1\|1hn1]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [http://www.ebi.ac.uk/pdbsum/1f4a 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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [http://www.ebi.ac.uk/pdbsum/1f4a PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	[[Category: Beta-galactosidase]]		[[Category: Beta-galactosidase]]
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Huber, R E.]]	+	[[Category: Huber, R E]]
-	[[Category: Jacobson, R H.]]	+	[[Category: Jacobson, R H]]
-	[[Category: Juers, D H.]]	+	[[Category: Juers, D H]]
-	[[Category: Matthews, B W.]]	+	[[Category: Matthews, B W]]
-	[[Category: Tronrud, D E.]]	+	[[Category: Tronrud, D E]]
-	[[Category: Wigley, D.]]	+	[[Category: Wigley, D]]
-	[[Category: Zhang, X J.]]	+	[[Category: Zhang, X J]]
	[[Category: Alpha/beta barrel]]		[[Category: Alpha/beta barrel]]
	[[Category: Beta supersandwich]]		[[Category: Beta supersandwich]]

OCA at 09:47, 28 September 2014

OCA — Sun, 28 Sep 2014 09:47:40 GMT

←Older revision		Revision as of 09:47, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1f4a.~~png~~\|~~left~~\|200px]]	+	==E. COLI (LACZ) BETA-GALACTOSIDASE (NCS CONSTRAINED MONOMER-ORTHORHOMBIC)==
		+	<StructureSection load='1f4a' size='340' side='right' caption='[[1f4a]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1f4a]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F4A FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dp0\|1dp0]], [[1f49\|1f49]], [[1gho\|1gho]], [[1f4h\|1f4h]], [[1hn1\|1hn1]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </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=1f4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f4a OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f4a RCSB], [http://www.ebi.ac.uk/pdbsum/1f4a 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/f4/1f4a_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 unrefined fold of Escherichia coli beta-galactosidase based on a monoclinic crystal form with four independent tetramers has been reported previously. Here, we describe a new, orthorhombic form with one tetramer per asymmetric unit that has permitted refinement of the structure at 1.7 A resolution. This high-resolution analysis has confirmed the original description of the structure and revealed new details. An essential magnesium ion, identified at the active site in the monoclinic crystals, is also seen in the orthorhombic form. Additional putative magnesium binding sites are also seen. Sodium ions are also known to affect catalysis, and five putative binding sites have been identified, one close to the active site. In a crevice on the protein surface, five linked five-membered solvent rings form a partial clathrate-like structure. Some other unusual aspects of the structure include seven apparent cis-peptide bonds, four of which are proline, and several internal salt-bridge networks. Deep solvent-filled channels and tunnels extend across the surface of the molecule and pass through the center of the tetramer. Because of these departures from a compact globular shape, the molecule is not well characterized by prior empirical relationships between the mass and surface area of proteins. The 50 or so residues at the amino terminus have a largely extended conformation and mostly lie across the surface of the protein. At the same time, however, segment 13-21 contributes to a subunit interface, and residues 29-33 pass through a "tunnel" formed by a domain interface. Taken together, the overall arrangement provides a structural basis for the phenomenon of alpha-complementation.

-	~~{{STRUCTURE_1f4a\| PDB=1f4a \| SCENE= }}~~	+	High resolution refinement of beta-galactosidase in a new crystal form reveals multiple metal-binding sites and provides a structural basis for alpha-complementation.,Juers DH, Jacobson RH, Wigley D, Zhang XJ, Huber RE, Tronrud DE, Matthews BW Protein Sci. 2000 Sep;9(9):1685-99. PMID:11045615<ref>PMID:11045615</ref>

-	~~===E. COLI (LACZ) BETA-GALACTOSIDASE (NCS CONSTRAINED MONOMER-ORTHORHOMBIC)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11045615}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1f4a]] is~~ a ~~4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Escherichia_coli Escherichia coli]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA].~~	+

	==See Also==		==See Also==
	*[[Galactosidase\|Galactosidase]]		*[[Galactosidase\|Galactosidase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:011045615<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Beta-galactosidase]]		[[Category: Beta-galactosidase]]
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]

OCA at 05:45, 20 October 2012

OCA — Sat, 20 Oct 2012 05:45:46 GMT

←Older revision		Revision as of 05:45, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1f4a]] is a 4 chain structure ~~of [[Galactosidase]]~~ with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA].	+	[[1f4a]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F4A OCA].

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

OCA: Protected "1f4a" [edit=sysop:move=sysop]

OCA — Wed, 25 Jul 2012 11:02:37 GMT

Protected "1f4a" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:02, 25 July 2012