2vhp - Revision history

OCA: Redirecting to 4v5b

2014-12-10T15:14:37Z

Redirecting to 4v5b

←Older revision		Revision as of 15:14, 10 December 2014
Line 1:		Line 1:
-	~~==STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)==~~	+	#REDIRECT [[4v5b]] This PDB entry is obsolete and replaced by 4v5b
-	~~<StructureSection load='2vhp' size='340' side='right' caption='~~[[~~2vhp]], [[Resolution\|resolution]] 3.74Å' scene=''>~~	+
-	~~== Structural highlights ==~~	+
-	~~<table><tr><td colspan='2'>[[2vhp~~]] is a 21 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=2VHP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VHP FirstGlance]. <br>	+
-	~~</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>~~	+
-	~~<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vhm\|2vhm]], [[2vhn\|2vhn]], [[2vho\|2vho]]</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=2vhp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vhp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vhp RCSB], [http://www.ebi.ac.uk/pdbsum/2vhp PDBsum]</span></td></tr>	+
-	~~<table>~~	+
-	~~== Evolutionary Conservation ==~~	+
-	~~[[Image:Consurf_key_small.gif\|200px\|right]]~~	+
-	~~Check<jmol>~~	+
-	~~<jmolCheckbox>~~	+
-	~~<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vh/2vhp_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 ==~~	+
-	~~Messenger-RNA-directed protein synthesis is accomplished~~ by the ribosome. In eubacteria, this complex process is initiated by a specialized transfer RNA charged with formylmethionine (tRNA(fMet)). The amino-terminal formylated methionine of all bacterial nascent polypeptides blocks the reactive amino group to prevent unfavourable side-reactions and to enhance the efficiency of translation initiation. The first enzymatic factor that processes nascent chains is peptide deformylase (PDF); it removes this formyl group as polypeptides emerge from the ribosomal tunnel and before the newly synthesized proteins can adopt their native fold, which may bury the N terminus. Next, the N-terminal methionine is excised by methionine aminopeptidase. Bacterial PDFs are metalloproteases sharing a conserved N-terminal catalytic domain. All Gram-negative bacteria, including Escherichia coli, possess class-1 PDFs characterized by a carboxy-terminal alpha-helical extension. Studies focusing on PDF as a target for antibacterial drugs have not revealed the mechanism of its co-translational mode of action despite indications in early work that it co-purifies with ribosomes. Here we provide biochemical evidence that E. coli PDF interacts directly with the ribosome via its C-terminal extension. Crystallographic analysis of the complex between the ribosome-interacting helix of PDF and the ribosome at 3.7 A resolution reveals that the enzyme orients its active site towards the ribosomal tunnel exit for efficient co-translational processing of emerging nascent chains. Furthermore, we have found that the interaction of PDF with the ribosome enhances cell viability. These results provide the structural basis for understanding the coupling between protein synthesis and enzymatic processing of nascent chains, and offer insights into the interplay of PDF with the ribosome-associated chaperone trigger factor.	+
-		+
-	A peptide deformylase-ribosome complex reveals mechanism of nascent chain processing.,Bingel-Erlenmeyer R, Kohler R, Kramer G, Sandikci A, Antolic S, Maier T, Schaffitzel C, Wiedmann B, Bukau B, Ban N Nature. 2008 Mar 6;452(7183):108-11. Epub 2008 Feb 20. PMID:18288106<ref>PMID:18288106</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-		+
-	~~==See Also==~~	+
-	*[[Ribosome 3D structures\|Ribosome 3D structures]]	+
-	~~== References ==~~	+
-	~~<references/>~~	+
-	~~__TOC__~~	+
-	~~</StructureSection>~~	+
-	~~[[Category: Escherichia coli]]~~	+
-	~~[[Category: Antolic, S.]]~~	+
-	~~[[Category: Ban, N.]]~~	+
-	~~[[Category: Bingel-Erlenmeyer, R.]]~~	+
-	~~[[Category: Bukau, B.]]~~	+
-	~~[[Category: Kohler, R.]]~~	+
-	~~[[Category: Kramer, G.]]~~	+
-	~~[[Category: Maier, T.]]~~	+
-	~~[[Category: Sandikci, A.]]~~	+
-	~~[[Category: Schaffitzel, C.]]~~	+
-	~~[[Category: Wiedmann, B.]]~~	+
-	~~[[Category: 30s ribosomal subunit]]~~	+
-	~~[[Category: Antibiotic resistance]]~~	+
-	~~[[Category: Nascent chain processing]]~~	+
-	~~[[Category: Peptide deformylase]]~~	+
-	~~[[Category: Protein biosynthesis]]~~	+
-	~~[[Category: Ribonucleoprotein]]~~	+
-	~~[[Category: Ribosomal protein]]~~	+
-	~~[[Category: Ribosome]]~~	+
-	~~[[Category: Rna-binding]]~~	+
-	~~[[Category: Rna-protein complex]]~~	+
-	~~[[Category: Translation]]~~	+
-	~~[[Category: Translation regulation]]~~	+
-	~~[[Category: Trna-binding]]~~	+

OCA at 07:41, 29 September 2014

2014-09-29T07:41:15Z

←Older revision		Revision as of 07:41, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2vhp.~~png~~\|~~left~~\|200px]]	+	==STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)==
		+	<StructureSection load='2vhp' size='340' side='right' caption='[[2vhp]], [[Resolution\|resolution]] 3.74Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2vhp]] is a 21 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=2VHP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VHP FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vhm\|2vhm]], [[2vhn\|2vhn]], [[2vho\|2vho]]</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=2vhp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vhp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vhp RCSB], [http://www.ebi.ac.uk/pdbsum/2vhp PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vh/2vhp_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 ==
		+	Messenger-RNA-directed protein synthesis is accomplished by the ribosome. In eubacteria, this complex process is initiated by a specialized transfer RNA charged with formylmethionine (tRNA(fMet)). The amino-terminal formylated methionine of all bacterial nascent polypeptides blocks the reactive amino group to prevent unfavourable side-reactions and to enhance the efficiency of translation initiation. The first enzymatic factor that processes nascent chains is peptide deformylase (PDF); it removes this formyl group as polypeptides emerge from the ribosomal tunnel and before the newly synthesized proteins can adopt their native fold, which may bury the N terminus. Next, the N-terminal methionine is excised by methionine aminopeptidase. Bacterial PDFs are metalloproteases sharing a conserved N-terminal catalytic domain. All Gram-negative bacteria, including Escherichia coli, possess class-1 PDFs characterized by a carboxy-terminal alpha-helical extension. Studies focusing on PDF as a target for antibacterial drugs have not revealed the mechanism of its co-translational mode of action despite indications in early work that it co-purifies with ribosomes. Here we provide biochemical evidence that E. coli PDF interacts directly with the ribosome via its C-terminal extension. Crystallographic analysis of the complex between the ribosome-interacting helix of PDF and the ribosome at 3.7 A resolution reveals that the enzyme orients its active site towards the ribosomal tunnel exit for efficient co-translational processing of emerging nascent chains. Furthermore, we have found that the interaction of PDF with the ribosome enhances cell viability. These results provide the structural basis for understanding the coupling between protein synthesis and enzymatic processing of nascent chains, and offer insights into the interplay of PDF with the ribosome-associated chaperone trigger factor.

-	~~{{STRUCTURE_2vhp\| PDB=2vhp \| SCENE= }}~~	+	A peptide deformylase-ribosome complex reveals mechanism of nascent chain processing.,Bingel-Erlenmeyer R, Kohler R, Kramer G, Sandikci A, Antolic S, Maier T, Schaffitzel C, Wiedmann B, Bukau B, Ban N Nature. 2008 Mar 6;452(7183):108-11. Epub 2008 Feb 20. PMID:18288106<ref>PMID:18288106</ref>

-	~~===STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18288106}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2vhp]] is~~ a ~~21 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=2VHP OCA].~~	+

	==See Also==		==See Also==
-	*[[~~Ribosomal protein S10~~\|~~Ribosomal protein S10~~]]	+	*[[Ribosome 3D structures\|Ribosome 3D structures]]
-	*[[Ribosomal protein S11\|Ribosomal protein S11]]	+	== References ==
-	*[[Ribosomal protein S12\|Ribosomal protein S12]]	+	<references/>
-	*[[Ribosomal protein S13\|Ribosomal protein S13]]	+	__TOC__
-	*[[Ribosomal protein S14\|Ribosomal protein S14]]	+	</StructureSection>
-	*[[Ribosomal protein S15\|Ribosomal protein S15]]	+
-	*[[Ribosomal protein S16\|Ribosomal protein S16]]	+
-	*[[Ribosomal protein S17\|Ribosomal protein S17]]	+
-	*[[Ribosomal protein S18\|Ribosomal protein S18]]	+
-	*[[Ribosomal protein S19\|Ribosomal protein S19]]	+
-	*[[Ribosomal protein S2\|Ribosomal protein S2]]	+
-	*[[Ribosomal protein S20\|Ribosomal protein S20]]	+
-	*[[Ribosomal protein S21\|Ribosomal protein S21]]	+
-	*[[Ribosomal protein S3\|Ribosomal protein S3]]	+
-	*[[Ribosomal protein S4\|Ribosomal protein S4]]	+
-	*[[Ribosomal protein S5\|Ribosomal protein S5]]	+
-	*[[Ribosomal protein S6\|Ribosomal protein S6]]	+
-	*[[Ribosomal protein S7\|Ribosomal protein S7]]	+
-	*[[Ribosomal protein S8\|Ribosomal protein S8]]	+
-	*[[Ribosomal protein S9\|Ribosomal protein S9]]	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018288106<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Antolic, S.]]		[[Category: Antolic, S.]]

OCA at 14:13, 20 October 2012

2012-10-20T14:13:12Z

←Older revision		Revision as of 14:13, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2vhp]] is a 21 chain structure of [[Ribosomal protein S10]], [[Ribosomal protein S11]], [[Ribosomal protein S12]], [[Ribosomal protein S13]], [[Ribosomal protein S14]], [[Ribosomal protein S15]], [[Ribosomal protein S16]], [[Ribosomal protein S17]], [[Ribosomal protein S18]], [[Ribosomal protein S19]], [[Ribosomal protein S2]], [[Ribosomal protein S20]], [[Ribosomal protein S21]], [[Ribosomal protein S3]], [[Ribosomal protein S4]], [[Ribosomal protein S5]], [[Ribosomal protein S6]], [[Ribosomal protein S7]], [[Ribosomal protein S8]] and [[Ribosomal protein S9]] 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=2VHP OCA].	+	[[2vhp]] is a 21 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=2VHP OCA].

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

OCA at 14:27, 26 July 2012

2012-07-26T14:27:53Z

←Older revision		Revision as of 14:27, 26 July 2012
Line 1:		Line 1:
	[[Image:2vhp.png\|left\|200px]]		[[Image:2vhp.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2vhp", 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_2vhp\| PDB=2vhp \| SCENE= }}		{{STRUCTURE_2vhp\| PDB=2vhp \| SCENE= }}

	===STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)===		===STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18288106}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18288106 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18288106}}		{{ABSTRACT_PUBMED_18288106}}

	==About this Structure==		==About this Structure==
-	[[2vhp]] is a 21 chain structure of [[Ribosomal protein S10]], [[Ribosomal protein S11]], [[Ribosomal protein S12]], [[Ribosomal protein S13]], [[Ribosomal protein S15]], [[Ribosomal protein S17]], [[Ribosomal protein S2]], [[Ribosomal protein S20]], [[Ribosomal protein S21]], [[Ribosomal protein S3]] ~~and~~ [[Ribosomal protein S4]] 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=2VHP OCA].	+	[[2vhp]] is a 21 chain structure of [[Ribosomal protein S10]], [[Ribosomal protein S11]], [[Ribosomal protein S12]], [[Ribosomal protein S13]], [[Ribosomal protein S14]], [[Ribosomal protein S15]], [[Ribosomal protein S16]], [[Ribosomal protein S17]], [[Ribosomal protein S18]], [[Ribosomal protein S19]], [[Ribosomal protein S2]], [[Ribosomal protein S20]], [[Ribosomal protein S21]], [[Ribosomal protein S3]], [[Ribosomal protein S4]], [[Ribosomal protein S5]], [[Ribosomal protein S6]], [[Ribosomal protein S7]], [[Ribosomal protein S8]] and [[Ribosomal protein S9]] 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=2VHP OCA].

	==See Also==		==See Also==
-	*[[Ribosomal protein S10]]	+	*[[Ribosomal protein S10\|Ribosomal protein S10]]
-	*[[Ribosomal protein S11]]	+	*[[Ribosomal protein S11\|Ribosomal protein S11]]
-	*[[Ribosomal protein S12]]	+	*[[Ribosomal protein S12\|Ribosomal protein S12]]
-	*[[Ribosomal protein S13]]	+	*[[Ribosomal protein S13\|Ribosomal protein S13]]
-	*[[Ribosomal protein S15]]	+	*[[Ribosomal protein S14\|Ribosomal protein S14]]
-	*[[Ribosomal protein S17]]	+	*[[Ribosomal protein S15\|Ribosomal protein S15]]
-	*[[Ribosomal protein S2]]	+	*[[Ribosomal protein S16\|Ribosomal protein S16]]
-	*[[Ribosomal protein S20]]	+	*[[Ribosomal protein S17\|Ribosomal protein S17]]
-	*[[Ribosomal protein S21]]	+	*[[Ribosomal protein S18\|Ribosomal protein S18]]
-	*[[Ribosomal protein S3]]	+	*[[Ribosomal protein S19\|Ribosomal protein S19]]
-	*[[Ribosomal protein S4]]	+	*[[Ribosomal protein S2\|Ribosomal protein S2]]
		+	*[[Ribosomal protein S20\|Ribosomal protein S20]]
		+	*[[Ribosomal protein S21\|Ribosomal protein S21]]
		+	*[[Ribosomal protein S3\|Ribosomal protein S3]]
		+	*[[Ribosomal protein S4\|Ribosomal protein S4]]
		+	*[[Ribosomal protein S5\|Ribosomal protein S5]]
		+	*[[Ribosomal protein S6\|Ribosomal protein S6]]
		+	*[[Ribosomal protein S7\|Ribosomal protein S7]]
		+	*[[Ribosomal protein S8\|Ribosomal protein S8]]
		+	*[[Ribosomal protein S9\|Ribosomal protein S9]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18288106~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018288106</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Antolic, S.]]		[[Category: Antolic, S.]]

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

2010-12-26T19:58:43Z

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

←Older revision

Revision as of 19:58, 26 December 2010

OCA at 19:58, 26 December 2010

2010-12-26T19:58:41Z

←Older revision		Revision as of 19:58, 26 December 2010
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2vhp.png\|left\|200px]]		[[Image:2vhp.png\|left\|200px]]

Line 12:		Line 11:
	===STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)===		===STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_18288106}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18288106 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18288106}}

	==About this Structure==		==About this Structure==
-	~~2VHP~~ is a 21 ~~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=2VHP OCA].	+	[[2vhp]] is a 21 chain structure of [[Ribosomal protein S10]], [[Ribosomal protein S11]], [[Ribosomal protein S12]], [[Ribosomal protein S13]], [[Ribosomal protein S15]], [[Ribosomal protein S17]], [[Ribosomal protein S2]], [[Ribosomal protein S20]], [[Ribosomal protein S21]], [[Ribosomal protein S3]] and [[Ribosomal protein S4]] 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=2VHP OCA].
		+
		+	==See Also==
		+	*[[Ribosomal protein S10]]
		+	*[[Ribosomal protein S11]]
		+	*[[Ribosomal protein S12]]
		+	*[[Ribosomal protein S13]]
		+	*[[Ribosomal protein S15]]
		+	*[[Ribosomal protein S17]]
		+	*[[Ribosomal protein S2]]
		+	*[[Ribosomal protein S20]]
		+	*[[Ribosomal protein S21]]
		+	*[[Ribosomal protein S3]]
		+	*[[Ribosomal protein S4]]
		+
		+	==Reference==
		+	<ref group="xtra">PMID:18288106</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Antolic, S.]]		[[Category: Antolic, S.]]
Line 39:		Line 60:
	[[Category: Translation regulation]]		[[Category: Translation regulation]]
	[[Category: Trna-binding]]		[[Category: Trna-binding]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:37:57 2009''

OCA at 08:37, 17 February 2009

2009-02-17T08:37:58Z

←Older revision		Revision as of 08:37, 17 February 2009
Line 1:		Line 1:
-	[[Image:2vhp.~~jpg~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2vhp.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_2vhp\| PDB=2vhp \| SCENE= }}		{{STRUCTURE_2vhp\| PDB=2vhp \| SCENE= }}

-	~~'''~~STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)~~'''~~	+	===STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)===


	==About this Structure==		==About this Structure==
-	2VHP is a ~~[[Protein complex]]~~ 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=2VHP OCA].	+	2VHP is a 21 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=2VHP OCA].
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Protein complex]]
	[[Category: Antolic, S.]]		[[Category: Antolic, S.]]
	[[Category: Ban, N.]]		[[Category: Ban, N.]]
Line 39:		Line 39:
	[[Category: Translation regulation]]		[[Category: Translation regulation]]
	[[Category: Trna-binding]]		[[Category: Trna-binding]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 18~~:49:~~59 2008~~''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:37:57 2009''

OCA at 15:50, 4 May 2008

2008-05-04T15:50:00Z

←Older revision		Revision as of 15:50, 4 May 2008
Line 1:		Line 1:
	[[Image:2vhp.jpg\|left\|200px]]		[[Image:2vhp.jpg\|left\|200px]]

-	{{Structure	+	<!--
-	\|PDB~~= 2vhp \|SIZE=350\|CAPTION= <~~scene ~~name='initialview01'>2vhp</scene>~~, ~~resolution 3~~.~~74Å~~	+	The line below this paragraph, containing "STRUCTURE_2vhp", 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=A:ADENOSINE~~-~~5'~~-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5'-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</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_2vhp\| PDB=2vhp \| SCENE= }}
-	~~\|RELATEDENTRY=[[2vhm\|2VHM]], [[2vhn\|2VHN]], [[2vho\|2VHO]]~~	+
-	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2vhp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vhp OCA], [http://www.ebi.ac.uk/pdbsum/2vhp PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2vhp RCSB]</span>	+
-	}}	+

	'''STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)'''		'''STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)'''
Line 30:		Line 27:
	[[Category: Wiedmann, B.]]		[[Category: Wiedmann, B.]]
	[[Category: 30s ribosomal subunit]]		[[Category: 30s ribosomal subunit]]
-	[[Category: ~~antibiotic~~ resistance]]	+	[[Category: Antibiotic resistance]]
-	[[Category: ~~nascent~~ chain processing]]	+	[[Category: Nascent chain processing]]
-	[[Category: ~~peptide~~ deformylase]]	+	[[Category: Peptide deformylase]]
-	[[Category: ~~protein~~ biosynthesis]]	+	[[Category: Protein biosynthesis]]
-	[[Category: ~~ribonucleoprotein~~]]	+	[[Category: Ribonucleoprotein]]
-	[[Category: ~~ribosomal~~ protein]]	+	[[Category: Ribosomal protein]]
-	[[Category: ~~ribosome~~]]	+	[[Category: Ribosome]]
-	[[Category: ~~rna~~-binding]]	+	[[Category: Rna-binding]]
-	[[Category: ~~rna~~-protein complex]]	+	[[Category: Rna-protein complex]]
-	[[Category: ~~translation~~]]	+	[[Category: Translation]]
-	[[Category: ~~translation~~ regulation]]	+	[[Category: Translation regulation]]
-	[[Category: ~~trna~~-binding]]	+	[[Category: Trna-binding]]
-		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 18:49:59 2008''
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Mar 31 05~~:12:27 2008''	+

OCA at 02:12, 31 March 2008

2008-03-31T02:12:29Z

←Older revision		Revision as of 02:12, 31 March 2008
Line 4:		Line 4:
	\|PDB= 2vhp \|SIZE=350\|CAPTION= <scene name='initialview01'>2vhp</scene>, resolution 3.74Å		\|PDB= 2vhp \|SIZE=350\|CAPTION= <scene name='initialview01'>2vhp</scene>, resolution 3.74Å
	\|SITE=		\|SITE=
-	\|LIGAND= <scene name='pdbligand=MG:MAGNESIUM ION'>MG</scene>	+	\|LIGAND= <scene name='pdbligand=A:ADENOSINE-5'-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5'-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene>
	\|ACTIVITY=		\|ACTIVITY=
	\|GENE=		\|GENE=
		+	\|DOMAIN=
		+	\|RELATEDENTRY=[[2vhm\|2VHM]], [[2vhn\|2VHN]], [[2vho\|2VHO]]
		+	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2vhp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vhp OCA], [http://www.ebi.ac.uk/pdbsum/2vhp PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2vhp RCSB]</span>
	}}		}}

Line 26:		Line 29:
	[[Category: Schaffitzel, C.]]		[[Category: Schaffitzel, C.]]
	[[Category: Wiedmann, B.]]		[[Category: Wiedmann, B.]]
-	[[Category: MG]]
	[[Category: 30s ribosomal subunit]]		[[Category: 30s ribosomal subunit]]
	[[Category: antibiotic resistance]]		[[Category: antibiotic resistance]]
Line 41:		Line 43:
	[[Category: trna-binding]]		[[Category: trna-binding]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu~~ Mar ~~20 18~~:46:51 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:12:27 2008''

OCA at 16:46, 20 March 2008

2008-03-20T16:46:54Z

←Older revision		Revision as of 16:46, 20 March 2008
Line 1:		Line 1:
-	[[Image:2vhp.jpg\|left\|200px]]~~<br /><applet load~~="2vhp~~" size~~="350~~" color~~=~~"white" frame~~=~~"true" align="right" spinBox="true"~~	+	[[Image:2vhp.jpg\|left\|200px]]
-	~~caption="~~2vhp, resolution 3.74Å" />	+
-	'''STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)'''~~<br />~~	+	{{Structure
		+	\|PDB= 2vhp \|SIZE=350\|CAPTION= <scene name='initialview01'>2vhp</scene>, resolution 3.74Å
		+	\|SITE=
		+	\|LIGAND= <scene name='pdbligand=MG:MAGNESIUM ION'>MG</scene>
		+	\|ACTIVITY=
		+	\|GENE=
		+	}}
		+
		+	'''STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)'''
		+

	==About this Structure==		==About this Structure==
-	2VHP is a [~~http://en.wikipedia.org/wiki/Protein_complex~~ Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli~~] with <scene name='pdbligand=MG:'>MG</scene> as [http://en.wikipedia.org/wiki/ligand ligand~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VHP OCA].	+	2VHP is a [[Protein complex]] 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=2VHP OCA].
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Protein complex]]		[[Category: Protein complex]]
Line 32:		Line 41:
	[[Category: trna-binding]]		[[Category: trna-binding]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Feb 27 07~~:59:28 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:46:51 2008''