3tyk - Revision history

OCA at 12:47, 17 January 2024

OCA — Wed, 17 Jan 2024 12:47:50 GMT

←Older revision		Revision as of 12:47, 17 January 2024
Line 3:		Line 3:
	<StructureSection load='3tyk' size='340' side='right'caption='[[3tyk]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='3tyk' size='340' side='right'caption='[[3tyk]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3tyk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ovc 3ovc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TYK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TYK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3tyk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ovc 3ovc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TYK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TYK FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>~~, ~~<scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</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]] 1.95Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~CSX~~:~~S-OXY~~+~~CYSTEINE~~'>~~CSX~~</scene>, <scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CSX:S-OXY+CYSTEINE'>CSX</scene>, <scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">APH(4)~~, ~~hph ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])~~<~~/td></tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Hygromycin_B_4-O-kinase Hygromycin B 4-O-kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.163 2.7.1.163]~~ </~~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=3tyk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tyk OCA], [https://pdbe.org/3tyk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3tyk RCSB], [https://www.ebi.ac.uk/pdbsum/3tyk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3tyk 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=3tyk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tyk OCA], [https://pdbe.org/3tyk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3tyk RCSB], [https://www.ebi.ac.uk/pdbsum/3tyk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3tyk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/KHYB_ECOLX KHYB_ECOLX]] The aminoglycoside phosphotransferases achieve inactivation of their antibiotic substrates by phosphorylation. Only phosphorylates hygromycin and closely related compounds such as demethyl analogs and destomycin.	+	[https://www.uniprot.org/uniprot/KHYB_ECOLX KHYB_ECOLX] The aminoglycoside phosphotransferases achieve inactivation of their antibiotic substrates by phosphorylation. Only phosphorylates hygromycin and closely related compounds such as demethyl analogs and destomycin.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 28:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895]]~~	+	[[Category: Escherichia coli]]
-	~~[[Category: Hygromycin B 4-O-kinase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Anderson~~, W F~~]]	+	[[Category: Anderson WF]]
-	[[Category: Chruszcz, M]]	+	[[Category: Chruszcz M]]
-	[[Category: Evdokmova, E]]	+	[[Category: Evdokmova E]]
-	[[Category: Fan, Y]]	+	[[Category: Fan Y]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Minor W]]
-	[[Category: Minor, W]]	+	[[Category: Savchenko A]]
-	[[Category: Savchenko, A]]	+	[[Category: Shabalin IG]]
-	[[Category: Shabalin~~, I G~~]]	+	[[Category: Shakya T]]
-	[[Category: Shakya, T]]	+	[[Category: Stogios PJ]]
-	[[Category: Stogios~~, P J~~]]	+	[[Category: Wright GD]]
-	[[Category: Wright~~, G D]]~~	+
-	~~[[Category: Aminoglycoside binding]]~~	+
-	~~[[Category: Aminoglycoside phosphotransferase]]~~	+
-	~~[[Category: Antibiotic resistance]]~~	+
-	~~[[Category: Cytoplasmic]]~~	+
-	~~[[Category: Eukaryotic protein kinase-like fold]]~~	+
-	~~[[Category: Mcsg]]~~	+
-	~~[[Category: Phosphorylation]]~~	+
-	~~[[Category: Phosphotransferase/kinase]]~~	+
-	~~[[Category: PSI, Protein structure initiative]]~~	+
-	~~[[Category: Transferase-antibiotic complex~~]]	+

OCA at 10:00, 13 April 2022

OCA — Wed, 13 Apr 2022 10:00:03 GMT

←Older revision		Revision as of 10:00, 13 April 2022
Line 1:		Line 1:

	==Crystal structure of aminoglycoside phosphotransferase APH(4)-Ia==		==Crystal structure of aminoglycoside phosphotransferase APH(4)-Ia==
-	<StructureSection load='3tyk' size='340' side='right' caption='[[3tyk]], [[Resolution\|resolution]] 1.95Å' scene=''>	+	<StructureSection load='3tyk' size='340' side='right'caption='[[3tyk]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3tyk]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ovc 3ovc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TYK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3TYK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3tyk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ovc 3ovc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TYK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TYK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSX:S-OXY+CYSTEINE'>CSX</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSX:S-OXY+CYSTEINE'>CSX</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APH(4), hph ([~~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">APH(4), hph ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Hygromycin_B_4-O-kinase Hygromycin B 4-O-kinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.163 2.7.1.163] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Hygromycin_B_4-O-kinase Hygromycin B 4-O-kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.163 2.7.1.163] </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=3tyk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tyk OCA], [~~http~~://pdbe.org/3tyk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3tyk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3tyk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3tyk 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=3tyk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tyk OCA], [https://pdbe.org/3tyk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3tyk RCSB], [https://www.ebi.ac.uk/pdbsum/3tyk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3tyk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/KHYB_ECOLX KHYB_ECOLX]] The aminoglycoside phosphotransferases achieve inactivation of their antibiotic substrates by phosphorylation. Only phosphorylates hygromycin and closely related compounds such as demethyl analogs and destomycin.	+	[[https://www.uniprot.org/uniprot/KHYB_ECOLX KHYB_ECOLX]] The aminoglycoside phosphotransferases achieve inactivation of their antibiotic substrates by phosphorylation. Only phosphorylates hygromycin and closely related compounds such as demethyl analogs and destomycin.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 3tyk" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3tyk" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Phosphotransferase 3D structures\|Phosphotransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 27:		Line 30:
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
	[[Category: Hygromycin B 4-O-kinase]]		[[Category: Hygromycin B 4-O-kinase]]
		+	[[Category: Large Structures]]
	[[Category: Anderson, W F]]		[[Category: Anderson, W F]]
	[[Category: Chruszcz, M]]		[[Category: Chruszcz, M]]

OCA at 20:10, 5 August 2016

OCA — Fri, 05 Aug 2016 20:10:17 GMT

←Older revision		Revision as of 20:10, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of aminoglycoside phosphotransferase APH(4)-Ia==		==Crystal structure of aminoglycoside phosphotransferase APH(4)-Ia==
	<StructureSection load='3tyk' size='340' side='right' caption='[[3tyk]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='3tyk' size='340' side='right' caption='[[3tyk]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3tyk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia~~ coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ovc 3ovc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TYK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3TYK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3tyk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ovc 3ovc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TYK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3TYK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSX:S-OXY+CYSTEINE'>CSX</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSX:S-OXY+CYSTEINE'>CSX</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APH(4), hph ([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">APH(4), hph ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hygromycin_B_4-O-kinase Hygromycin B 4-O-kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.163 2.7.1.163] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hygromycin_B_4-O-kinase Hygromycin B 4-O-kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.163 2.7.1.163] </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=3tyk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tyk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3tyk RCSB], [http://www.ebi.ac.uk/pdbsum/3tyk 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=3tyk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tyk OCA], [http://pdbe.org/3tyk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3tyk RCSB], [http://www.ebi.ac.uk/pdbsum/3tyk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3tyk ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	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 3tyk" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia~~ coli]]	+	[[Category: Bacillus coli migula 1895]]
	[[Category: Hygromycin B 4-O-kinase]]		[[Category: Hygromycin B 4-O-kinase]]
	[[Category: Anderson, W F]]		[[Category: Anderson, W F]]

OCA at 05:29, 25 December 2014

OCA — Thu, 25 Dec 2014 05:29:16 GMT

←Older revision		Revision as of 05:29, 25 December 2014
Line 9:		Line 9:
	<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=3tyk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tyk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3tyk RCSB], [http://www.ebi.ac.uk/pdbsum/3tyk 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=3tyk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tyk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3tyk RCSB], [http://www.ebi.ac.uk/pdbsum/3tyk PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/KHYB_ECOLX KHYB_ECOLX]] The aminoglycoside phosphotransferases achieve inactivation of their antibiotic substrates by phosphorylation. Only phosphorylates hygromycin and closely related compounds such as demethyl analogs and destomycin.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 16:59, 9 December 2014

OCA — Tue, 09 Dec 2014 16:59:48 GMT

←Older revision		Revision as of 16:59, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3tyk.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of aminoglycoside phosphotransferase APH(4)-Ia==
		+	<StructureSection load='3tyk' size='340' side='right' caption='[[3tyk]], [[Resolution\|resolution]] 1.95Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3tyk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ovc 3ovc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TYK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3TYK FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSX:S-OXY+CYSTEINE'>CSX</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APH(4), hph ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Hygromycin_B_4-O-kinase Hygromycin B 4-O-kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.163 2.7.1.163] </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=3tyk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tyk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3tyk RCSB], [http://www.ebi.ac.uk/pdbsum/3tyk PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The aminoglycoside phosphotransferase (APH) APH(4)-Ia is one of two enzymes responsible for bacterial resistance to the atypical aminoglycoside antibiotic hygromycin B (hygB). The crystal structure of APH(4)-Ia enzyme was solved in complex with hygB at 1.95 A resolution. The APH(4)-Ia structure adapts a general two-lobe architecture shared by other APH enzymes and eukaryotic kinases, with the active site located at the interdomain cavity. The enzyme forms an extended hydrogen bond network with hygB primarily through polar and acidic side chain groups. Individual alanine substitutions of seven residues involved in hygB binding did not have significant effect on APH(4)-Ia enzymatic activity, indicating that the binding affinity is spread across a distributed network. hygB appeared as the only substrate recognized by APH(4)-Ia among the panel of 14 aminoglycoside compounds. Analysis of the active site architecture and the interaction with the hygB molecule demonstrated several unique features supporting such restricted substrate specificity. Primarily the APH(4)-Ia substrate-binding site contains a cluster of hydrophobic residues that provides a complementary surface to the twisted structure of the substrate. Similar to APH(2'') enzymes, the APH(4)-Ia is able to utilize either ATP or GTP for phosphoryl transfer. The defined structural features of APH(4)-Ia interactions with hygB and the promiscuity in regard to ATP or GTP binding could be exploited for the design of novel aminoglycoside antibiotics or inhibitors of this enzyme.

-	~~{{STRUCTURE_3tyk\| PDB=3tyk \| SCENE= }}~~	+	Structure and function of APH(4)-Ia, a hygromycin B resistance enzyme.,Stogios PJ, Shakya T, Evdokimova E, Savchenko A, Wright GD J Biol Chem. 2011 Jan 21;286(3):1966-75. Epub 2010 Nov 17. PMID:21084294<ref>PMID:21084294</ref>

-	~~===Crystal structure~~ of ~~aminoglycoside phosphotransferase APH(4)-Ia===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21084294}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3tyk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes~~ the ~~now removed PDB entry [http://oca~~.~~weizmann~~.ac.il/~~oca-bin/send-pdb?obs=1&id=3ovc 3ovc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TYK OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:021084294<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Hygromycin B 4-O-kinase]]		[[Category: Hygromycin B 4-O-kinase]]
-	[[Category: Anderson, W F.]]	+	[[Category: Anderson, W F]]
-	[[Category: Chruszcz, M.]]	+	[[Category: Chruszcz, M]]
-	[[Category: Evdokmova, E.]]	+	[[Category: Evdokmova, E]]
-	[[Category: Fan, Y.]]	+	[[Category: Fan, Y]]
-	[[Category: ~~MCSG, Midwest Center for~~ Structural ~~Genomics.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Minor, W.]]	+	[[Category: Minor, W]]
-	[[Category: Savchenko, A.]]	+	[[Category: Savchenko, A]]
-	[[Category: Shabalin, I G.]]	+	[[Category: Shabalin, I G]]
-	[[Category: Shakya, T.]]	+	[[Category: Shakya, T]]
-	[[Category: Stogios, P J.]]	+	[[Category: Stogios, P J]]
-	[[Category: Wright, G D.]]	+	[[Category: Wright, G D]]
	[[Category: Aminoglycoside binding]]		[[Category: Aminoglycoside binding]]
	[[Category: Aminoglycoside phosphotransferase]]		[[Category: Aminoglycoside phosphotransferase]]
Line 31:		Line 40:
	[[Category: Eukaryotic protein kinase-like fold]]		[[Category: Eukaryotic protein kinase-like fold]]
	[[Category: Mcsg]]		[[Category: Mcsg]]
-	[[Category: Midwest center for structural genomic]]
	[[Category: Phosphorylation]]		[[Category: Phosphorylation]]
	[[Category: Phosphotransferase/kinase]]		[[Category: Phosphotransferase/kinase]]
-	[[Category: ~~Psi-2~~]]	+	[[Category: PSI, Protein structure initiative]]
	[[Category: Transferase-antibiotic complex]]		[[Category: Transferase-antibiotic complex]]

OCA at 14:44, 28 November 2012

OCA — Wed, 28 Nov 2012 14:44:13 GMT

←Older revision		Revision as of 14:44, 28 November 2012
Line 1:		Line 1:
	[[Image:3tyk.png\|left\|200px]]		[[Image:3tyk.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3tyk", 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_3tyk\| PDB=3tyk \| SCENE= }}		{{STRUCTURE_3tyk\| PDB=3tyk \| SCENE= }}

	===Crystal structure of aminoglycoside phosphotransferase APH(4)-Ia===		===Crystal structure of aminoglycoside phosphotransferase APH(4)-Ia===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21084294}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21084294 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21084294}}		{{ABSTRACT_PUBMED_21084294}}

Line 45:		Line 34:
	[[Category: Phosphorylation]]		[[Category: Phosphorylation]]
	[[Category: Phosphotransferase/kinase]]		[[Category: Phosphotransferase/kinase]]
		+	[[Category: Psi-2]]
	[[Category: Transferase-antibiotic complex]]		[[Category: Transferase-antibiotic complex]]

OCA at 08:20, 25 April 2012

OCA — Wed, 25 Apr 2012 08:20:32 GMT

←Older revision		Revision as of 08:20, 25 April 2012
Line 26:		Line 26:
	[[Category: Hygromycin B 4-O-kinase]]		[[Category: Hygromycin B 4-O-kinase]]
	[[Category: Anderson, W F.]]		[[Category: Anderson, W F.]]
-	[[Category: CSGID, Center for Structural Genomics of Infectious Diseases.]]
	[[Category: Chruszcz, M.]]		[[Category: Chruszcz, M.]]
	[[Category: Evdokmova, E.]]		[[Category: Evdokmova, E.]]
	[[Category: Fan, Y.]]		[[Category: Fan, Y.]]
		+	[[Category: MCSG, Midwest Center for Structural Genomics.]]
	[[Category: Minor, W.]]		[[Category: Minor, W.]]
	[[Category: Savchenko, A.]]		[[Category: Savchenko, A.]]
Line 39:		Line 39:
	[[Category: Aminoglycoside phosphotransferase]]		[[Category: Aminoglycoside phosphotransferase]]
	[[Category: Antibiotic resistance]]		[[Category: Antibiotic resistance]]
-	[[Category: Center for structural genomics of infectious disease]]
-	[[Category: Csgid]]
	[[Category: Cytoplasmic]]		[[Category: Cytoplasmic]]
	[[Category: Eukaryotic protein kinase-like fold]]		[[Category: Eukaryotic protein kinase-like fold]]
		+	[[Category: Mcsg]]
		+	[[Category: Midwest center for structural genomic]]
	[[Category: Phosphorylation]]		[[Category: Phosphorylation]]
	[[Category: Phosphotransferase/kinase]]		[[Category: Phosphotransferase/kinase]]
-	[[Category: Structural genomic]]
	[[Category: Transferase-antibiotic complex]]		[[Category: Transferase-antibiotic complex]]

OCA at 09:15, 30 October 2011

OCA — Sun, 30 Oct 2011 09:15:35 GMT

←Older revision		Revision as of 09:15, 30 October 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3tyk.png\|left\|200px]]

-	The ~~entry 3tyk~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3tyk", 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_3tyk\| PDB=3tyk \| SCENE= }}

-	~~Authors: Stogios, P.J., Shabalin, I.G., Shakya, T., Evdokmova, E., Fan, Y., Chruszcz, M., Minor, W., Wright, G.D., Savchenko, A., Anderson, W.F., Center for Structural Genomics~~ of ~~Infectious Diseases~~ (~~CSGID~~)	+	===Crystal structure of aminoglycoside phosphotransferase APH(4)-Ia===

-	~~Description~~: ~~Crystal~~ structure of ~~aminoglycoside~~ phosphotransferase ~~APH(4)~~-Ia	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21084294}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21084294 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21084294}}
		+
		+	==About this Structure==
		+	[[3tyk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3ovc 3ovc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TYK OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021084294</ref><references group="xtra"/>
		+	[[Category: Escherichia coli]]
		+	[[Category: Hygromycin B 4-O-kinase]]
		+	[[Category: Anderson, W F.]]
		+	[[Category: CSGID, Center for Structural Genomics of Infectious Diseases.]]
		+	[[Category: Chruszcz, M.]]
		+	[[Category: Evdokmova, E.]]
		+	[[Category: Fan, Y.]]
		+	[[Category: Minor, W.]]
		+	[[Category: Savchenko, A.]]
		+	[[Category: Shabalin, I G.]]
		+	[[Category: Shakya, T.]]
		+	[[Category: Stogios, P J.]]
		+	[[Category: Wright, G D.]]
		+	[[Category: Aminoglycoside binding]]
		+	[[Category: Aminoglycoside phosphotransferase]]
		+	[[Category: Antibiotic resistance]]
		+	[[Category: Center for structural genomics of infectious disease]]
		+	[[Category: Csgid]]
		+	[[Category: Cytoplasmic]]
		+	[[Category: Eukaryotic protein kinase-like fold]]
		+	[[Category: Phosphorylation]]
		+	[[Category: Phosphotransferase/kinase]]
		+	[[Category: Structural genomic]]
		+	[[Category: Transferase-antibiotic complex]]

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

OCA — Wed, 05 Oct 2011 06:13:27 GMT

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

←Older revision

Revision as of 06:13, 5 October 2011

OCA: New page: '''Unreleased structure''' The entry 3tyk is ON HOLD Authors: Stogios, P.J., Shabalin, I.G., Shakya, T., Evdokmova, E., Fan, Y., Chruszcz, M., Minor, W., Wright, G.D., Savchenko, A., An...

OCA — Wed, 05 Oct 2011 06:13:25 GMT

New page: '''Unreleased structure''' The entry 3tyk is ON HOLD Authors: Stogios, P.J., Shabalin, I.G., Shakya, T., Evdokmova, E., Fan, Y., Chruszcz, M., Minor, W., Wright, G.D., Savchenko, A., An...

New page

'''Unreleased structure'''

The entry 3tyk is ON HOLD

Authors: Stogios, P.J., Shabalin, I.G., Shakya, T., Evdokmova, E., Fan, Y., Chruszcz, M., Minor, W., Wright, G.D., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Description: Crystal structure of aminoglycoside phosphotransferase APH(4)-Ia