1yh0 - Revision history

OCA: Redirecting to 3kzc

2010-03-31T10:28:48Z

Redirecting to 3kzc

←Older revision		Revision as of 10:28, 31 March 2010
Line 1:		Line 1:
-	~~{{Seed}}~~	+	#REDIRECT [[3kzc]] This PDB entry is obsolete and replaced by 3kzc
-	[[~~Image:1yh0.png\|left\|200px~~]]	+
-		+
-	~~<!--~~	+
-	~~The line below this paragraph, containing "STRUCTURE_1yh0", 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_1yh0\| PDB=1yh0 \| SCENE= }}~~	+
-		+
-	~~===Crystal Structure of Acetylornithine Transcarbamylase===~~	+
-		+
-		+
-	~~<!--~~	+
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_15731101}}, adds the Publication Abstract to the page~~	+
-	~~(as it appears on PubMed at http://www.pubmed.gov), where 15731101 is the PubMed ID number.~~	+
-	~~-->~~	+
-	~~{{ABSTRACT_PUBMED_15731101}}~~	+
-		+
-	~~==About this Structure==~~	+
-	1YH0 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris Xanthomonas campestris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YH0 OCA].	+
-		+
-	~~==Reference==~~	+
-	~~<ref group="xtra">PMID:15731101</ref><references group="xtra"/>~~	+
-	~~[[Category: Xanthomonas campestris]]~~	+
-	~~[[Category: Allewell, N M.]]~~	+
-	~~[[Category: Caldovic, L.]]~~	+
-	~~[[Category: Malamy, M H.]]~~	+
-	~~[[Category: Morizono, H.]]~~	+
-	~~[[Category: Roth, L.]]~~	+
-	~~[[Category: Shi, D.]]~~	+
-	~~[[Category: Tuchman, M.]]~~	+
-	~~[[Category: Yu, X.]]~~	+
-	~~[[Category: Acetylcitrulline]]~~	+
-	~~[[Category: Acetylornithine]]~~	+
-	~~[[Category: Argf]]~~	+
-	~~[[Category: Transcarbamylase]]~~	+
-		+
-	~~''Page seeded~~ by ~~[http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 11:33:07 2009''~~	+

OCA at 09:33, 17 February 2009

2009-02-17T09:33:09Z

←Older revision		Revision as of 09:33, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1YH0 is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris Xanthomonas campestris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YH0 OCA].	+	1YH0 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris Xanthomonas campestris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YH0 OCA].

	==Reference==		==Reference==
-	Crystal structure of N-acetylornithine transcarbamylase from Xanthomonas campestris: a novel enzyme in a new arginine biosynthetic pathway found in several eubacteria., Shi D, Morizono H, Yu X, Roth L, Caldovic L, Allewell NM, Malamy MH, Tuchman M, J Biol Chem. 2005 Apr 15;280(15):14366-9. Epub 2005 Feb 24. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/15731101 15731101]~~	+	<ref group="xtra">PMID:15731101</ref><references group="xtra"/>
-	~~[[Category: Single protein]]~~	+
	[[Category: Xanthomonas campestris]]		[[Category: Xanthomonas campestris]]
	[[Category: Allewell, N M.]]		[[Category: Allewell, N M.]]
Line 39:		Line 38:
	[[Category: Transcarbamylase]]		[[Category: Transcarbamylase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 15~~:39:~~51 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 11:33:07 2009''

OCA at 12:39, 28 July 2008

2008-07-28T12:39:52Z

←Older revision		Revision as of 12:39, 28 July 2008
Line 1:		Line 1:
-	[[Image:1yh0.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1yh0.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_1yh0\| PDB=1yh0 \| SCENE= }}		{{STRUCTURE_1yh0\| PDB=1yh0 \| SCENE= }}

-	~~'''~~Crystal Structure of Acetylornithine Transcarbamylase~~'''~~	+	===Crystal Structure of Acetylornithine Transcarbamylase===


-	~~==Overview==~~	+	<!--
-	~~We have identified in Xanthomonas campestris a novel N-acetylornithine transcarbamylase that replaces ornithine transcarbamylase in the canonic arginine biosynthetic pathway of several Eubacteria.~~ The ~~crystal structures of the protein in the presence and absence of the reaction product~~, ~~N-acetylcitrulline~~, ~~were determined. This new family of transcarbamylases lacks~~ the ~~DxxSMG motif that is characteristic of all ornithine transcarbamylases~~ (~~OTCases~~) ~~and contains a novel proline-rich loop that forms part of~~ the ~~active site~~. ~~The specificity for N~~-~~acetylornithine is conferred by hydrogen bonding with residues in the proline~~-rich loop via water molecules and by hydrophobic interactions with residues from the adjacent 80's, 120's, and proline-rich loops. This novel protein structure provides a starting point for rational design of specific analogs that may be useful in combating human and plant pathogens that utilize acetylornithine transcarbamylase rather than ornithine transcarbamylase.	+	The line below this paragraph, {{ABSTRACT_PUBMED_15731101}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 15731101 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_15731101}}

	==About this Structure==		==About this Structure==
Line 34:		Line 38:
	[[Category: Argf]]		[[Category: Argf]]
	[[Category: Transcarbamylase]]		[[Category: Transcarbamylase]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 16~~:18:25 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 15:39:51 2008''

OCA at 13:18, 3 May 2008

2008-05-03T13:18:27Z

←Older revision		Revision as of 13:18, 3 May 2008
Line 1:		Line 1:
	[[Image:1yh0.gif\|left\|200px]]		[[Image:1yh0.gif\|left\|200px]]

-	{{Structure	+	<!--
-	\|PDB~~= 1yh0 \|SIZE=350\|CAPTION= <~~scene ~~name='initialview01'>1yh0</scene>~~, ~~resolution 2~~.~~20Å~~	+	The line below this paragraph, containing "STRUCTURE_1yh0", creates the "Structure Box" on the page.
-	~~\|SITE=~~	+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	~~\|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene~~>	+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	\|~~ACTIVITY~~=	+	or leave the SCENE parameter empty for the default display.
-	\|~~GENE~~=	+	-->
-	~~\|DOMAIN=~~	+	{{STRUCTURE_1yh0\| PDB=1yh0 \| SCENE= }}
-	~~\|RELATEDENTRY=[[1js1\|1JS1]]~~	+
-	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yh0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yh0 OCA], [http://www.ebi.ac.uk/pdbsum/1yh0 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1yh0 RCSB]</span>	+
-	}}	+

	'''Crystal Structure of Acetylornithine Transcarbamylase'''		'''Crystal Structure of Acetylornithine Transcarbamylase'''
Line 33:		Line 30:
	[[Category: Tuchman, M.]]		[[Category: Tuchman, M.]]
	[[Category: Yu, X.]]		[[Category: Yu, X.]]
-	[[Category: ~~acetylcitrulline~~]]	+	[[Category: Acetylcitrulline]]
-	[[Category: ~~acetylornithine~~]]	+	[[Category: Acetylornithine]]
-	[[Category: ~~argf~~]]	+	[[Category: Argf]]
-	[[Category: ~~transcarbamylase~~]]	+	[[Category: Transcarbamylase]]
-		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 16:18:25 2008''
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Mar 31 01~~:07:01 2008''	+

OCA at 22:07, 30 March 2008

2008-03-30T22:07:07Z

←Older revision		Revision as of 22:07, 30 March 2008
Line 4:		Line 4:
	\|PDB= 1yh0 \|SIZE=350\|CAPTION= <scene name='initialview01'>1yh0</scene>, resolution 2.20Å		\|PDB= 1yh0 \|SIZE=350\|CAPTION= <scene name='initialview01'>1yh0</scene>, resolution 2.20Å
	\|SITE=		\|SITE=
-	\|LIGAND= <scene name='pdbligand=SO4:SULFATE ION'>SO4</scene>	+	\|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
	\|ACTIVITY=		\|ACTIVITY=
	\|GENE=		\|GENE=
		+	\|DOMAIN=
		+	\|RELATEDENTRY=[[1js1\|1JS1]]
		+	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yh0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yh0 OCA], [http://www.ebi.ac.uk/pdbsum/1yh0 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1yh0 RCSB]</span>
	}}		}}

Line 30:		Line 33:
	[[Category: Tuchman, M.]]		[[Category: Tuchman, M.]]
	[[Category: Yu, X.]]		[[Category: Yu, X.]]
-	[[Category: SO4]]
	[[Category: acetylcitrulline]]		[[Category: acetylcitrulline]]
	[[Category: acetylornithine]]		[[Category: acetylornithine]]
Line 36:		Line 38:
	[[Category: transcarbamylase]]		[[Category: transcarbamylase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu~~ Mar ~~20 15~~:22:44 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:07:01 2008''

OCA at 13:22, 20 March 2008

2008-03-20T13:22:50Z

←Older revision		Revision as of 13:22, 20 March 2008
Line 1:		Line 1:
-	[[Image:1yh0.gif\|left\|200px]]~~<br /><applet load~~="1yh0~~" size~~="350~~" color~~=~~"white" frame~~=~~"true" align="right" spinBox="true"~~	+	[[Image:1yh0.gif\|left\|200px]]
-	~~caption="~~1yh0, resolution 2.20Å" />	+
-	'''Crystal Structure of Acetylornithine Transcarbamylase'''~~<br />~~	+	{{Structure
		+	\|PDB= 1yh0 \|SIZE=350\|CAPTION= <scene name='initialview01'>1yh0</scene>, resolution 2.20Å
		+	\|SITE=
		+	\|LIGAND= <scene name='pdbligand=SO4:SULFATE ION'>SO4</scene>
		+	\|ACTIVITY=
		+	\|GENE=
		+	}}
		+
		+	'''Crystal Structure of Acetylornithine Transcarbamylase'''
		+

	==Overview==		==Overview==
Line 7:		Line 16:

	==About this Structure==		==About this Structure==
-	1YH0 is a [~~http://en.wikipedia.org/wiki/Single_protein~~ Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris Xanthomonas campestris~~] with <scene name='pdbligand=SO4:'>SO4</scene> as [http://en.wikipedia.org/wiki/ligand ligand~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YH0 OCA].	+	1YH0 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris Xanthomonas campestris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YH0 OCA].

	==Reference==		==Reference==
-	Crystal structure of N-acetylornithine transcarbamylase from Xanthomonas campestris: a novel enzyme in a new arginine biosynthetic pathway found in several eubacteria., Shi D, Morizono H, Yu X, Roth L, Caldovic L, Allewell NM, Malamy MH, Tuchman M, J Biol Chem. 2005 Apr 15;280(15):14366-9. Epub 2005 Feb 24. PMID:[http://~~ispc~~.~~weizmann~~.ac.~~il/~~/~~pmbin~~/~~getpm?pmid=~~15731101 15731101]	+	Crystal structure of N-acetylornithine transcarbamylase from Xanthomonas campestris: a novel enzyme in a new arginine biosynthetic pathway found in several eubacteria., Shi D, Morizono H, Yu X, Roth L, Caldovic L, Allewell NM, Malamy MH, Tuchman M, J Biol Chem. 2005 Apr 15;280(15):14366-9. Epub 2005 Feb 24. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15731101 15731101]
	[[Category: Single protein]]		[[Category: Single protein]]
	[[Category: Xanthomonas campestris]]		[[Category: Xanthomonas campestris]]
Line 27:		Line 36:
	[[Category: transcarbamylase]]		[[Category: transcarbamylase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu ~~Feb 21 16~~:05:13 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:22:44 2008''

OCA at 14:05, 21 February 2008

2008-02-21T14:05:13Z

←Older revision		Revision as of 14:05, 21 February 2008
Line 1:		Line 1:
-	[[Image:1yh0.gif\|left\|200px]]<br /><applet load="1yh0" size="~~450~~" color="white" frame="true" align="right" spinBox="true"	+	[[Image:1yh0.gif\|left\|200px]]<br /><applet load="1yh0" size="350" color="white" frame="true" align="right" spinBox="true"
	caption="1yh0, resolution 2.20Å" />		caption="1yh0, resolution 2.20Å" />
	'''Crystal Structure of Acetylornithine Transcarbamylase'''<br />		'''Crystal Structure of Acetylornithine Transcarbamylase'''<br />

	==Overview==		==Overview==
-	We have identified in Xanthomonas campestris a novel N-acetylornithine, transcarbamylase that replaces ornithine transcarbamylase in the canonic, arginine biosynthetic pathway of several Eubacteria. The crystal, structures of the protein in the presence and absence of the reaction, product, N-acetylcitrulline, were determined. This new family of, transcarbamylases lacks the DxxSMG motif that is characteristic of all, ornithine transcarbamylases (OTCases) and contains a novel proline-rich, loop that forms part of the active site. The specificity for, N-acetylornithine is conferred by hydrogen bonding with residues in the, proline-rich loop via water molecules and by hydrophobic interactions with, residues from the adjacent 80's, 120's, and proline-rich loops. This novel, protein structure provides a starting point for rational design of, specific analogs that may be useful in combating human and plant pathogens, that utilize acetylornithine transcarbamylase rather than ornithine, transcarbamylase.	+	We have identified in Xanthomonas campestris a novel N-acetylornithine transcarbamylase that replaces ornithine transcarbamylase in the canonic arginine biosynthetic pathway of several Eubacteria. The crystal structures of the protein in the presence and absence of the reaction product, N-acetylcitrulline, were determined. This new family of transcarbamylases lacks the DxxSMG motif that is characteristic of all ornithine transcarbamylases (OTCases) and contains a novel proline-rich loop that forms part of the active site. The specificity for N-acetylornithine is conferred by hydrogen bonding with residues in the proline-rich loop via water molecules and by hydrophobic interactions with residues from the adjacent 80's, 120's, and proline-rich loops. This novel protein structure provides a starting point for rational design of specific analogs that may be useful in combating human and plant pathogens that utilize acetylornithine transcarbamylase rather than ornithine transcarbamylase.

	==About this Structure==		==About this Structure==
-	1YH0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris Xanthomonas campestris] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://~~ispc~~.weizmann.ac.il/oca-bin/ocashort?id=1YH0 OCA].	+	1YH0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris Xanthomonas campestris] with <scene name='pdbligand=SO4:'>SO4</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YH0 OCA].

	==Reference==		==Reference==
Line 13:		Line 13:
	[[Category: Single protein]]		[[Category: Single protein]]
	[[Category: Xanthomonas campestris]]		[[Category: Xanthomonas campestris]]
-	[[Category: Allewell, N.M.]]	+	[[Category: Allewell, N M.]]
	[[Category: Caldovic, L.]]		[[Category: Caldovic, L.]]
-	[[Category: Malamy, M.H.]]	+	[[Category: Malamy, M H.]]
	[[Category: Morizono, H.]]		[[Category: Morizono, H.]]
	[[Category: Roth, L.]]		[[Category: Roth, L.]]
Line 27:		Line 27:
	[[Category: transcarbamylase]]		[[Category: transcarbamylase]]

-	''Page seeded by [http://~~ispc~~.weizmann.ac.il/oca OCA ] on ~~Wed Nov~~ 21 ~~06:46~~:05 ~~2007~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:05:13 2008''

OCA: New page: 200px
'''Crystal Structure of...
2007-11-21T04:38:50Z

New page: 200px<br /><applet load="1yh0" size="450" color="white" frame="true" align="right" spinBox="true" caption="1yh0, resolution 2.20Å" /> '''Crystal Structure of...

New page
[[Image:1yh0.gif|left|200px]]<br /><applet load="1yh0" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1yh0, resolution 2.20Å" />
'''Crystal Structure of Acetylornithine Transcarbamylase'''<br />

==Overview==
We have identified in Xanthomonas campestris a novel N-acetylornithine, transcarbamylase that replaces ornithine transcarbamylase in the canonic, arginine biosynthetic pathway of several Eubacteria. The crystal, structures of the protein in the presence and absence of the reaction, product, N-acetylcitrulline, were determined. This new family of, transcarbamylases lacks the DxxSMG motif that is characteristic of all, ornithine transcarbamylases (OTCases) and contains a novel proline-rich, loop that forms part of the active site. The specificity for, N-acetylornithine is conferred by hydrogen bonding with residues in the, proline-rich loop via water molecules and by hydrophobic interactions with, residues from the adjacent 80's, 120's, and proline-rich loops. This novel, protein structure provides a starting point for rational design of, specific analogs that may be useful in combating human and plant pathogens, that utilize acetylornithine transcarbamylase rather than ornithine, transcarbamylase.

==About this Structure==
1YH0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Xanthomonas_campestris Xanthomonas campestris] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1YH0 OCA].

==Reference==
Crystal structure of N-acetylornithine transcarbamylase from Xanthomonas campestris: a novel enzyme in a new arginine biosynthetic pathway found in several eubacteria., Shi D, Morizono H, Yu X, Roth L, Caldovic L, Allewell NM, Malamy MH, Tuchman M, J Biol Chem. 2005 Apr 15;280(15):14366-9. Epub 2005 Feb 24. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15731101 15731101]
[[Category: Single protein]]
[[Category: Xanthomonas campestris]]
[[Category: Allewell, N.M.]]
[[Category: Caldovic, L.]]
[[Category: Malamy, M.H.]]
[[Category: Morizono, H.]]
[[Category: Roth, L.]]
[[Category: Shi, D.]]
[[Category: Tuchman, M.]]
[[Category: Yu, X.]]
[[Category: SO4]]
[[Category: acetylcitrulline]]
[[Category: acetylornithine]]
[[Category: argf]]
[[Category: transcarbamylase]]

''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 06:46:05 2007''