3w0o - Revision history

OCA at 08:43, 20 March 2024

OCA — Wed, 20 Mar 2024 08:43:16 GMT

←Older revision		Revision as of 08:43, 20 March 2024
Line 3:		Line 3:
	<StructureSection load='3w0o' size='340' side='right'caption='[[3w0o]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3w0o' size='340' side='right'caption='[[3w0o]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3w0o]] is a 1 chain structure with sequence from [https://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=3W0O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W0O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3w0o]] is a 1 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=3W0O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W0O FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ADP:ADENOSINE~~-~~5-DIPHOSPHATE'>ADP</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]] 1.5Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[3w0m\|3w0m]], [[3w0n\|3w0n]], [[3w0p\|3w0p]], [[3w0q\|3w0q]], [[3w0r\|3w0r]], [[3w0s\|3w0s]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>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=3w0o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0o OCA], [https://pdbe.org/3w0o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w0o RCSB], [https://www.ebi.ac.uk/pdbsum/3w0o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w0o 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=3w0o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0o OCA], [https://pdbe.org/3w0o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w0o RCSB], [https://www.ebi.ac.uk/pdbsum/3w0o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w0o 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;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Aminoglycoside 4-phosphotransferase-Ia (APH(4)-Ia)/Hygromycin B phosphotransferase (Hph) inactivates the aminoglycoside antibiotic hygromycin B (hygB) via phosphorylation. The crystal structure of the binary complex of APH(4)-Ia with hygB was recently reported. To characterize substrate recognition by the enzyme, we determined the crystal structure of the ternary complex of non-hydrolyzable ATP analog AMP-PNP and hygB with wild-type, thermostable Hph mutant Hph5, and apo-mutant enzyme forms. The comparison between the ternary complex and apo structures revealed that Hph undergoes domain movement upon binding of AMP-PNP and hygB. This was about half amount of the case of APH(9)-Ia. We also determined the crystal structures of mutants in which the conserved, catalytically important residues Asp198 and Asn203, and the non-conserved Asn202, were converted to Ala, revealing the importance of Asn202 for catalysis. Hph5 contains five amino acid substitutions that alter its thermostability by 16 degrees C; its structure revealed that 4/5 mutations in Hph5 are located in the hydrophobic core and appear to increase thermostability by strengthening hydrophobic interactions.	+
-		+
-	Crystal structures of the ternary complex of APH(4)-Ia/Hph with hygromycin B and an ATP analog using a thermostable mutant.,Iino D, Takakura Y, Fukano K, Sasaki Y, Hoshino T, Ohsawa K, Nakamura A, Yajima S J Struct Biol. 2013 Jul;183(1):76-85. doi: 10.1016/j.jsb.2013.05.023. Epub 2013, Jun 7. PMID:23747390<ref>PMID:23747390</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3w0o" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
	__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: Fukano, K]]	+	[[Category: Fukano K]]
-	[[Category: Hoshino, T]]	+	[[Category: Hoshino T]]
-	[[Category: Iino, D]]	+	[[Category: Iino D]]
-	[[Category: Nakamura, A]]	+	[[Category: Nakamura A]]
-	[[Category: Ohsawa, K]]	+	[[Category: Ohsawa K]]
-	[[Category: Sasaki, Y]]	+	[[Category: Sasaki Y]]
-	[[Category: Takakura, Y]]	+	[[Category: Takakura Y]]
-	[[Category: Yajima, S]]	+	[[Category: Yajima S]]
-	~~[[Category: Phosphotransferase]]~~	+
-	~~[[Category: Transferase-antibiotic complex~~]]	+

OCA at 05:17, 3 August 2022

OCA — Wed, 03 Aug 2022 05:17:10 GMT

←Older revision		Revision as of 05:17, 3 August 2022
Line 1:		Line 1:

	==Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B==		==Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B==
-	<StructureSection load='3w0o' size='340' side='right' caption='[[3w0o]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='3w0o' size='340' side='right'caption='[[3w0o]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3w0o]] is a 1 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=3W0O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3W0O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3w0o]] is a 1 chain structure with sequence from [https://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=3W0O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W0O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</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=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3w0m\|3w0m]], [[3w0n\|3w0n]], [[3w0p\|3w0p]], [[3w0q\|3w0q]], [[3w0r\|3w0r]], [[3w0s\|3w0s]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3w0m\|3w0m]], [[3w0n\|3w0n]], [[3w0p\|3w0p]], [[3w0q\|3w0q]], [[3w0r\|3w0r]], [[3w0s\|3w0s]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">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">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=3w0o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0o OCA], [~~http~~://pdbe.org/3w0o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3w0o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3w0o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3w0o 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=3w0o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0o OCA], [https://pdbe.org/3w0o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w0o RCSB], [https://www.ebi.ac.uk/pdbsum/3w0o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w0o 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 27:		Line 27:
	[[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: Fukano, K]]		[[Category: Fukano, K]]
	[[Category: Hoshino, T]]		[[Category: Hoshino, T]]

OCA at 10:23, 4 August 2016

OCA — Thu, 04 Aug 2016 10:23:49 GMT

←Older revision		Revision as of 10:23, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B==		==Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B==
	<StructureSection load='3w0o' size='340' side='right' caption='[[3w0o]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='3w0o' size='340' side='right' caption='[[3w0o]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3w0o]] is a 1 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=3W0O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W0O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3w0o]] is a 1 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=3W0O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W0O FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</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=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3w0m\|3w0m]], [[3w0n\|3w0n]], [[3w0p\|3w0p]], [[3w0q\|3w0q]], [[3w0r\|3w0r]], [[3w0s\|3w0s]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3w0m\|3w0m]], [[3w0n\|3w0n]], [[3w0p\|3w0p]], [[3w0q\|3w0q]], [[3w0r\|3w0r]], [[3w0s\|3w0s]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">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">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=3w0o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w0o RCSB], [http://www.ebi.ac.uk/pdbsum/3w0o 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=3w0o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0o OCA], [http://pdbe.org/3w0o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3w0o RCSB], [http://www.ebi.ac.uk/pdbsum/3w0o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3w0o 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 3w0o" 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: Fukano, K]]		[[Category: Fukano, K]]

OCA at 08:18, 25 December 2014

OCA — Thu, 25 Dec 2014 08:18:40 GMT

←Older revision		Revision as of 08:18, 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=3w0o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w0o RCSB], [http://www.ebi.ac.uk/pdbsum/3w0o 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=3w0o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w0o RCSB], [http://www.ebi.ac.uk/pdbsum/3w0o 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 07:12, 21 December 2014

OCA — Sun, 21 Dec 2014 07:12:00 GMT

←Older revision		Revision as of 07:12, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3w0o\| PDB=3w0o \| SCENE= }}~~	+	==Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B==
-	===Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B===	+	<StructureSection load='3w0o' size='340' side='right' caption='[[3w0o]], [[Resolution\|resolution]] 1.50Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23747390}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3w0o]] is a 1 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=3W0O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W0O FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=HY0:HYGROMYCIN+B+VARIANT'>HY0</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3w0m\|3w0m]], [[3w0n\|3w0n]], [[3w0p\|3w0p]], [[3w0q\|3w0q]], [[3w0r\|3w0r]], [[3w0s\|3w0s]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">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=3w0o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w0o RCSB], [http://www.ebi.ac.uk/pdbsum/3w0o PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Aminoglycoside 4-phosphotransferase-Ia (APH(4)-Ia)/Hygromycin B phosphotransferase (Hph) inactivates the aminoglycoside antibiotic hygromycin B (hygB) via phosphorylation. The crystal structure of the binary complex of APH(4)-Ia with hygB was recently reported. To characterize substrate recognition by the enzyme, we determined the crystal structure of the ternary complex of non-hydrolyzable ATP analog AMP-PNP and hygB with wild-type, thermostable Hph mutant Hph5, and apo-mutant enzyme forms. The comparison between the ternary complex and apo structures revealed that Hph undergoes domain movement upon binding of AMP-PNP and hygB. This was about half amount of the case of APH(9)-Ia. We also determined the crystal structures of mutants in which the conserved, catalytically important residues Asp198 and Asn203, and the non-conserved Asn202, were converted to Ala, revealing the importance of Asn202 for catalysis. Hph5 contains five amino acid substitutions that alter its thermostability by 16 degrees C; its structure revealed that 4/5 mutations in Hph5 are located in the hydrophobic core and appear to increase thermostability by strengthening hydrophobic interactions.

-	~~==Function==~~	+	Crystal structures of the ternary complex of APH(4)-Ia/Hph with hygromycin B and an ATP analog using a thermostable mutant.,Iino D, Takakura Y, Fukano K, Sasaki Y, Hoshino T, Ohsawa K, Nakamura A, Yajima S J Struct Biol. 2013 Jul;183(1):76-85. doi: 10.1016/j.jsb.2013.05.023. Epub 2013, Jun 7. PMID:23747390<ref>PMID:23747390</ref>
-	~~[[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~~.	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3w0o]] is~~ a ~~1 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=3W0O OCA].~~	+	</div>
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:023747390</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Hygromycin B 4-O-kinase]]		[[Category: Hygromycin B 4-O-kinase]]
-	[[Category: Fukano, K.]]	+	[[Category: Fukano, K]]
-	[[Category: Hoshino, T.]]	+	[[Category: Hoshino, T]]
-	[[Category: Iino, D.]]	+	[[Category: Iino, D]]
-	[[Category: Nakamura, A.]]	+	[[Category: Nakamura, A]]
-	[[Category: Ohsawa, K.]]	+	[[Category: Ohsawa, K]]
-	[[Category: Sasaki, Y.]]	+	[[Category: Sasaki, Y]]
-	[[Category: Takakura, Y.]]	+	[[Category: Takakura, Y]]
-	[[Category: Yajima, S.]]	+	[[Category: Yajima, S]]
	[[Category: Phosphotransferase]]		[[Category: Phosphotransferase]]
	[[Category: Transferase-antibiotic complex]]		[[Category: Transferase-antibiotic complex]]

OCA at 20:52, 7 August 2013

OCA — Wed, 07 Aug 2013 20:52:23 GMT

←Older revision		Revision as of 20:52, 7 August 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_3w0o\| PDB=3w0o \| SCENE= }}
		+	===Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B===
		+	{{ABSTRACT_PUBMED_23747390}}

-	The ~~entry 3w0o is ON HOLD until Paper Publication~~	+	==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.

-	~~Authors~~: ~~Iino, D~~.~~, Takakura, Y~~.~~, Fukano, K~~.~~, Sasaki, Y., Hoshino, T~~.~~, Ohsawa, K~~.~~, Nakamura, A~~.~~, Yajima, S~~.	+	==About this Structure==
		+	[[3w0o]] is a 1 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=3W0O OCA].

-	~~Description~~: ~~Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(~~4)-Ia, ~~ternary~~ complex ~~with ADP and hygromycin B~~	+	==Reference==
		+	<ref group="xtra">PMID:023747390</ref><references group="xtra"/><references/>
		+	[[Category: Escherichia coli]]
		+	[[Category: Hygromycin B 4-O-kinase]]
		+	[[Category: Fukano, K.]]
		+	[[Category: Hoshino, T.]]
		+	[[Category: Iino, D.]]
		+	[[Category: Nakamura, A.]]
		+	[[Category: Ohsawa, K.]]
		+	[[Category: Sasaki, Y.]]
		+	[[Category: Takakura, Y.]]
		+	[[Category: Yajima, S.]]
		+	[[Category: Phosphotransferase]]
		+	[[Category: Transferase-antibiotic complex]]

OCA at 12:45, 3 July 2013

OCA — Wed, 03 Jul 2013 12:45:40 GMT

←Older revision		Revision as of 12:45, 3 July 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3w0o is ON HOLD	+	The entry 3w0o is ON HOLD until Paper Publication

	Authors: Iino, D., Takakura, Y., Fukano, K., Sasaki, Y., Hoshino, T., Ohsawa, K., Nakamura, A., Yajima, S.		Authors: Iino, D., Takakura, Y., Fukano, K., Sasaki, Y., Hoshino, T., Ohsawa, K., Nakamura, A., Yajima, S.

	Description: Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B		Description: Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B

OCA at 06:05, 14 November 2012

OCA — Wed, 14 Nov 2012 06:05:18 GMT

←Older revision		Revision as of 06:05, 14 November 2012
Line 3:		Line 3:
	The entry 3w0o is ON HOLD		The entry 3w0o is ON HOLD

-	Authors: Iino, D, Takakura, Y, Fukano, K, Sasaki, Y, Hoshino, T, Ohsawa, K, Nakamura, A, Yajima, S	+	Authors: Iino, D., Takakura, Y., Fukano, K., Sasaki, Y., Hoshino, T., Ohsawa, K., Nakamura, A., Yajima, S.

	Description: Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B		Description: Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B

OCA: Protected "3w0o" [edit=sysop:move=sysop]

OCA — Thu, 08 Nov 2012 13:10:43 GMT

Protected "3w0o" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:10, 8 November 2012

OCA: New page: '''Unreleased structure''' The entry 3w0o is ON HOLD Authors: Iino, D, Takakura, Y, Fukano, K, Sasaki, Y, Hoshino, T, Ohsawa, K, Nakamura, A, Yajima, S Description: Crystal structure o...

OCA — Thu, 08 Nov 2012 13:10:42 GMT

New page: '''Unreleased structure''' The entry 3w0o is ON HOLD Authors: Iino, D, Takakura, Y, Fukano, K, Sasaki, Y, Hoshino, T, Ohsawa, K, Nakamura, A, Yajima, S Description: Crystal structure o...

New page

'''Unreleased structure'''

The entry 3w0o is ON HOLD

Authors: Iino, D, Takakura, Y, Fukano, K, Sasaki, Y, Hoshino, T, Ohsawa, K, Nakamura, A, Yajima, S

Description: Crystal structure of a thermostable mutant of aminoglycoside phosphotransferase APH(4)-Ia, ternary complex with ADP and hygromycin B