2fa1 - Revision history

OCA at 09:22, 14 February 2024

2024-02-14T09:22:12Z

← Older revision		Revision as of 09:22, 14 February 2024
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	==Crystal structure of PhnF C-terminal domain==		==Crystal structure of PhnF C-terminal domain==
	<StructureSection load='2fa1' size='340' side='right'caption='[[2fa1]]' scene=''>		<StructureSection load='2fa1' size='340' side='right'caption='[[2fa1]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FA1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FA1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2fa1]] is a 2 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=2FA1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FA1 FirstGlance]. <br>
	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [https://pdbe.org/2fa1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [https://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fa1 ProSAT], [https://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</span></td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.7Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BDF:BETA-D-FRUCTOPYRANOSE'>BDF</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=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [https://pdbe.org/2fa1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [https://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fa1 ProSAT], [https://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/PHNF_ECOLI PHNF_ECOLI] Belongs to an operon involved in alkylphosphonate uptake and C-P lyase. Exact function not known. By similarity could be a transcriptional regulator.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Edwards AM]]		[[Category: Edwards AM]]

OCA at 15:26, 3 March 2021

2021-03-03T15:26:49Z

← Older revision		Revision as of 15:26, 3 March 2021
Line 1:		Line 1:

	==Crystal structure of PhnF C-terminal domain==		==Crystal structure of PhnF C-terminal domain==
	<StructureSection load='2fa1' size='340' side='right' caption='[[2fa1]]~~, [[Resolution\|resolution]] 1.70Å~~' scene=''>		<StructureSection load='2fa1' size='340' side='right'caption='[[2fa1]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>~~[[2fa1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895].~~ Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FA1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2FA1 FirstGlance]. <br>		<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FA1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FA1 FirstGlance]. <br>
	</td></tr>~~<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDF:BETA-D-FRUCTOPYRANOSE'>BDF</scene></td></tr>~~		</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=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [https://pdbe.org/2fa1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [https://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fa1 ProSAT], [https://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</span></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phnF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [~~http~~://pdbe.org/2fa1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2fa1 ProSAT], [~~http~~://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</span></td></tr>
	</table>		</table>
	~~== Function ==~~
	[[http://www.uniprot.org/uniprot/PHNF_ECOLI PHNF_ECOLI]] Belongs to an operon involved in alkylphosphonate uptake and C-P lyase. Exact function not known. By similarity could be a transcriptional regulator.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		Line 16:
	</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=2fa1 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=2fa1 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	The crystal structure of Escherichia coli PhnF C-terminal domain (C-PhnF) was solved at 1.7 A resolution by the single wavelength anomalous dispersion (SAD) method. The PhnF protein belongs to the HutC subfamily of the large GntR transcriptional regulator family. Members of this family share similar N-terminal DNA-binding domains, but are divided into four subfamilies according to their heterogenic C-terminal domains, which are involved in effector binding and oligomerization. The C-PhnF structure provides for the first time the scaffold of this domain for the HutC subfamily, which covers about 31% of GntR-like regulators. The structure represents a mixture of alpha-helices and beta-strands, with a six-stranded antiparallel beta-sheet at the core. C-PhnF monomers form a dimer by establishing interdomain eight-strand beta-sheets that include core antiparallel and N-terminal two-strand parallel beta-sheets from each monomer. C-PhnF shares strong structural similarity with the chorismate lyase fold, which features a buried active site locked behind two helix-turn-helix loops. The structural comparison of the C-PhnF and UbiC proteins allows us to propose that a similar site in the PhnF structure is adapted for effector binding.

	Structural characterization of GntR/HutC family signaling domain.,Gorelik M, Lunin VV, Skarina T, Savchenko A Protein Sci. 2006 Jun;15(6):1506-11. Epub 2006 May 2. PMID:16672238<ref>PMID:16672238</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 2fa1" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Bacillus coli migula 1895~~]]		[[Category: Large Structures]]
	[[Category: Edwards~~, A M~~]]		[[Category: Edwards AM]]
	[[Category: Gorelik, M]]		[[Category: Gorelik M]]
	[[Category: Joachimiak, A]]		[[Category: Joachimiak A]]
	[[Category: Lunin~~, V V]]~~		[[Category: Lunin VV]]
	~~[[Category: Structural genomic~~]]		[[Category: Nocek BP]]
	[[Category: Nocek~~, B P~~]]		[[Category: Savchenko A]]
	[[Category: Savchenko, A]]		[[Category: Skarina T]]
	[[Category: Skarina, T]]
	~~[[Category: Apc5558]]~~
	~~[[Category: Effector binding domain]]~~
	~~[[Category: Mcsg]]~~
	~~[[Category: Pnhf]]~~
	~~[[Category: PSI, Protein structure initiative]]~~
	~~[[Category: Regulator]]~~
	~~[[Category: Transcription~~]]

OCA at 09:24, 14 June 2018

2018-06-14T09:24:58Z

← Older revision		Revision as of 09:24, 14 June 2018
Line 1:		Line 1:

	==Crystal structure of PhnF C-terminal domain==		==Crystal structure of PhnF C-terminal domain==
	<StructureSection load='2fa1' size='340' side='right' caption='[[2fa1]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2fa1' size='340' side='right' caption='[[2fa1]], [[Resolution\|resolution]] 1.70Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDF:BETA-D-FRUCTOPYRANOSE'>BDF</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDF:BETA-D-FRUCTOPYRANOSE'>BDF</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phnF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phnF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [http://pdbe.org/2fa1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [http://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</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=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [http://pdbe.org/2fa1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2fa1 ProSAT], [http://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fa/2fa1_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fa/2fa1_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 14:02, 7 February 2016

2016-02-07T14:02:33Z

← Older revision		Revision as of 14:02, 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=2fa1 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 02:11, 10 September 2015

2015-09-10T02:11:24Z

← Older revision		Revision as of 02:11, 10 September 2015
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	<StructureSection load='2fa1' size='340' side='right' caption='[[2fa1]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2fa1' size='340' side='right' caption='[[2fa1]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2fa1]] is a 2 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=2FA1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FA1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2fa1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FA1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FA1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDF:BETA-D-FRUCTOPYRANOSE'>BDF</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDF:BETA-D-FRUCTOPYRANOSE'>BDF</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phnF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 ~~Escherichia~~ coli])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phnF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [http://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</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=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [http://pdbe.org/2fa1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [http://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</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 2fa1" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Escherichia~~ coli]]		[[Category: Bacillus coli migula 1895]]
	[[Category: Edwards, A M]]		[[Category: Edwards, A M]]
	[[Category: Gorelik, M]]		[[Category: Gorelik, M]]

OCA at 15:45, 24 December 2014

2014-12-24T15:45:26Z

← Older revision		Revision as of 15:45, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2fa1]] is a 2 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=2FA1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FA1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2fa1]] is a 2 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=2FA1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FA1 FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDF:BETA-D-FRUCTOPYRANOSE'>BDF</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDF:BETA-D-FRUCTOPYRANOSE'>BDF</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phnF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phnF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [http://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</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=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [http://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/PHNF_ECOLI PHNF_ECOLI]] Belongs to an operon involved in alkylphosphonate uptake and C-P lyase. Exact function not known. By similarity could be a transcriptional regulator.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Edwards, A M.]]		[[Category: Edwards, A M]]
	[[Category: Gorelik, M.]]		[[Category: Gorelik, M]]
	[[Category: Joachimiak, A.]]		[[Category: Joachimiak, A]]
	[[Category: Lunin, V V.]]		[[Category: Lunin, V V]]
	[[Category: ~~MCSG, Midwest Center for~~ Structural ~~Genomics.~~]]		[[Category: Structural genomic]]
	[[Category: Nocek, B P.]]		[[Category: Nocek, B P]]
	[[Category: Savchenko, A.]]		[[Category: Savchenko, A]]
	[[Category: Skarina, T.]]		[[Category: Skarina, T]]
	[[Category: Apc5558]]		[[Category: Apc5558]]
	[[Category: Effector binding domain]]		[[Category: Effector binding domain]]
	[[Category: Mcsg]]		[[Category: Mcsg]]
	~~[[Category: Midwest center for structural genomic]]~~
	[[Category: Pnhf]]		[[Category: Pnhf]]
	[[Category: Protein structure initiative]]		[[Category: PSI, Protein structure initiative]]
	~~[[Category: Psi~~]]
	[[Category: Regulator]]		[[Category: Regulator]]
	[[Category: Transcription]]		[[Category: Transcription]]

OCA at 11:00, 3 October 2014

2014-10-03T11:00:22Z

← Older revision		Revision as of 11:00, 3 October 2014
Line 1:		Line 1:
	~~{{STRUCTURE_2fa1~~\| ~~PDB~~=2fa1 \| ~~SCENE~~= }}		==Crystal structure of PhnF C-terminal domain==
	===~~Crystal~~ structure of PhnF C-terminal domain~~===~~		<StructureSection load='2fa1' size='340' side='right' caption='[[2fa1]], [[Resolution\|resolution]] 1.70Å' scene=''>
	~~{{ABSTRACT_PUBMED_16672238}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[2fa1]] is a 2 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=2FA1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FA1 FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BDF:BETA-D-FRUCTOPYRANOSE'>BDF</scene><br>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">phnF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=2fa1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fa1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2fa1 RCSB], [http://www.ebi.ac.uk/pdbsum/2fa1 PDBsum], [http://www.topsan.org/Proteins/MCSG/2fa1 TOPSAN]</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/fa/2fa1_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 crystal structure of Escherichia coli PhnF C-terminal domain (C-PhnF) was solved at 1.7 A resolution by the single wavelength anomalous dispersion (SAD) method. The PhnF protein belongs to the HutC subfamily of the large GntR transcriptional regulator family. Members of this family share similar N-terminal DNA-binding domains, but are divided into four subfamilies according to their heterogenic C-terminal domains, which are involved in effector binding and oligomerization. The C-PhnF structure provides for the first time the scaffold of this domain for the HutC subfamily, which covers about 31% of GntR-like regulators. The structure represents a mixture of alpha-helices and beta-strands, with a six-stranded antiparallel beta-sheet at the core. C-PhnF monomers form a dimer by establishing interdomain eight-strand beta-sheets that include core antiparallel and N-terminal two-strand parallel beta-sheets from each monomer. C-PhnF shares strong structural similarity with the chorismate lyase fold, which features a buried active site locked behind two helix-turn-helix loops. The structural comparison of the C-PhnF and UbiC proteins allows us to propose that a similar site in the PhnF structure is adapted for effector binding.

	~~==Function==~~		Structural characterization of GntR/HutC family signaling domain.,Gorelik M, Lunin VV, Skarina T, Savchenko A Protein Sci. 2006 Jun;15(6):1506-11. Epub 2006 May 2. PMID:16672238<ref>PMID:16672238</ref>
	~~[[http:~~/~~/www~~.~~uniprot~~.~~org/uniprot/PHNF_ECOLI PHNF_ECOLI]] Belongs to an operon involved in alkylphosphonate uptake and C~~-~~P lyase~~. ~~Exact function not known. By similarity could be a transcriptional regulator~~.

	~~==About this Structure==~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	~~[[2fa1]] is~~ a ~~2 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=2FA1 OCA].~~		</div>
			== References ==
	==~~Reference~~==		<references/>
	~~<ref group="xtra">PMID:016672238</ref>~~<references ~~group="xtra"~~/><~~references~~/>		__TOC__
			</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Edwards, A M.]]		[[Category: Edwards, A M.]]

OCA at 08:51, 23 April 2014

2014-04-23T08:51:11Z

← Older revision		Revision as of 08:51, 23 April 2014
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	~~[[Image:2fa1.png\|left\|200px]]~~

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2fa1", 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_2fa1\| PDB=2fa1 \| SCENE= }}		{{STRUCTURE_2fa1\| PDB=2fa1 \| SCENE= }}

	===Crystal structure of PhnF C-terminal domain===		===Crystal structure of PhnF C-terminal domain===
			{{ABSTRACT_PUBMED_16672238}}

			==Function==
	~~<!--~~		[[http://www.uniprot.org/uniprot/PHNF_ECOLI PHNF_ECOLI]] Belongs to an operon involved in alkylphosphonate uptake and C-P lyase. Exact function not known. By similarity could be a transcriptional regulator.
	~~The line below this paragraph, {{ABSTRACT_PUBMED_16672238}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at~~ http://www.~~pubmed~~.~~gov), where 16672238 is the PubMed ID number~~.
	~~-->~~
	~~{{ABSTRACT_PUBMED_16672238}}~~

	==About this Structure==		==About this Structure==
Line 22:		Line 10:

	==Reference==		==Reference==
	<ref group="xtra">PMID:016672238</ref><references group="xtra"/>		<ref group="xtra">PMID:016672238</ref><references group="xtra"/><references/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Edwards, A M.]]		[[Category: Edwards, A M.]]

OCA: Protected "2fa1" [edit=sysop:move=sysop]

2011-10-05T05:52:52Z

Protected "2fa1" [edit=sysop:move=sysop]

← Older revision	Revision as of 05:52, 5 October 2011
(No difference)

OCA at 05:52, 5 October 2011

2011-10-05T05:52:51Z

← Older revision		Revision as of 05:52, 5 October 2011
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	~~{{Seed}}~~
	[[Image:2fa1.png\|left\|200px]]		[[Image:2fa1.png\|left\|200px]]

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	==About this Structure==		==About this Structure==
	~~2FA1~~ is a 2 ~~chains~~ structure ~~of sequences~~ 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=2FA1 OCA].		[[2fa1]] is a 2 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=2FA1 OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~16672238~~</ref><references group="xtra"/>		<ref group="xtra">PMID:016672238</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Edwards, A M.]]		[[Category: Edwards, A M.]]
	[[Category: Gorelik, M.]]		[[Category: Gorelik, M.]]
			[[Category: Joachimiak, A.]]
	[[Category: Lunin, V V.]]		[[Category: Lunin, V V.]]
	[[Category: MCSG, Midwest Center for Structural Genomics.]]		[[Category: MCSG, Midwest Center for Structural Genomics.]]
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	[[Category: Regulator]]		[[Category: Regulator]]
	[[Category: Transcription]]		[[Category: Transcription]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 14:17:49 2009''~~