1ypb - Revision history

OCA at 08:58, 14 February 2024

OCA — Wed, 14 Feb 2024 08:58:57 GMT

←Older revision		Revision as of 08:58, 14 February 2024
Line 3:		Line 3:
	<StructureSection load='1ypb' size='340' side='right'caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1ypb' size='340' side='right'caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Barley Barley~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YPB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YPB FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [https://pdbe.org/1ypb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [https://www.ebi.ac.uk/pdbsum/1ypb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ypb ProSAT]</span></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2Å</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=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [https://pdbe.org/1ypb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [https://www.ebi.ac.uk/pdbsum/1ypb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ypb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/ICI2_HORVU ICI2_HORVU]] Inhibits both subtilisin and chymotrypsin.	+	[https://www.uniprot.org/uniprot/ICI2_HORVU ICI2_HORVU] Inhibits both subtilisin and chymotrypsin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 18:		Line 19:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1ypb ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1ypb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The structural basis for the stability of N termini of helices has been analyzed by thermodynamic and crystallographic studies of three suitably engineered mutants of the barley chymotrypsin inhibitor 2 with Ser, Gly, or Ala at the N-cap position (residue 31). Each mutant has a well-organized shell of hydration of the terminal NH groups of the helix. The three structures are virtually superimposable (rms separations for all atoms, including the common water molecules, are 0.15-0.17 A) and show neither changes in conformation at the site of substitution nor changes in the crystal packing. The only changes on going from Ser-31 to Ala-31 to Gly-31 are in the position of a water molecule (Wat-116). This is bound to the Ser-O gamma atom in the Ser-31 structure but is in a weak hydrogen bonding position with the NH of residue 34 (O ... N = 3.28 A) in the Ala-31 mutant, partly replacing the strong Ser-31-O gamma ... N34 hydrogen bond (O ... N = 2.65 A). The corresponding water molecule completely replaces the Ser hydroxyl hydrogen bond to N34 on mutation to Gly (2.74 A). The only other change between the three structures is an additional water molecule in the Ala-31 structure (Wat-150) that partly compensates for the weak Wat-116 ... N34 hydrogen bond. Perturbation of solvation by the side chain of Ala is consistent with earlier hypotheses on the importance of exposure of the termini of helices to the aqueous solvent.
-
-	Direct observation of better hydration at the N terminus of an alpha-helix with glycine rather than alanine as the N-cap residue.,Harpaz Y, Elmasry N, Fersht AR, Henrick K Proc Natl Acad Sci U S A. 1994 Jan 4;91(1):311-5. PMID:8278384<ref>PMID:8278384</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1ypb" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Chymotrypsin inhibitor 3D structures\|Chymotrypsin inhibitor 3D structures]]		*[[Chymotrypsin inhibitor 3D structures\|Chymotrypsin inhibitor 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Barley~~]]	+	[[Category: Hordeum vulgare]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Elmasry, N]]	+	[[Category: Elmasry N]]
-	[[Category: Fersht~~, A R~~]]	+	[[Category: Fersht AR]]
-	[[Category: Harpaz, Y]]	+	[[Category: Harpaz Y]]
-	[[Category: Henrick, K]]	+	[[Category: Henrick K]]

OCA at 06:33, 6 October 2021

OCA — Wed, 06 Oct 2021 06:33:50 GMT

←Older revision		Revision as of 06:33, 6 October 2021
Line 3:		Line 3:
	<StructureSection load='1ypb' size='340' side='right'caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1ypb' size='340' side='right'caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Barley Barley]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1YPB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Barley Barley]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YPB FirstGlance]. <br>
-	</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=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [~~http~~://pdbe.org/1ypb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1ypb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1ypb ProSAT]</span></td></tr>	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [https://pdbe.org/1ypb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [https://www.ebi.ac.uk/pdbsum/1ypb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ypb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/ICI2_HORVU ICI2_HORVU]] Inhibits both subtilisin and chymotrypsin.	+	[[https://www.uniprot.org/uniprot/ICI2_HORVU ICI2_HORVU]] Inhibits both subtilisin and chymotrypsin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 11:13, 4 December 2019

OCA — Wed, 04 Dec 2019 11:13:27 GMT

←Older revision		Revision as of 11:13, 4 December 2019
Line 1:		Line 1:

	==DIRECT OBSERVATION OF BETTER HYDRATION AT THE N-TERMINUS OF AN ALPHA-HELIX WITH GLYCINE RATHER THAN ALANINE AS N-CAP==		==DIRECT OBSERVATION OF BETTER HYDRATION AT THE N-TERMINUS OF AN ALPHA-HELIX WITH GLYCINE RATHER THAN ALANINE AS N-CAP==
-	<StructureSection load='1ypb' size='340' side='right' caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='1ypb' size='340' side='right'caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Barley Barley]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YPB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Barley Barley]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YPB FirstGlance]. <br>
Line 12:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yp/1ypb_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yp/1ypb_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 27:		Line 27:
	</div>		</div>
	<div class="pdbe-citations 1ypb" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1ypb" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Chymotrypsin inhibitor 3D structures\|Chymotrypsin inhibitor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 32:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Barley]]		[[Category: Barley]]
		+	[[Category: Large Structures]]
	[[Category: Elmasry, N]]		[[Category: Elmasry, N]]
	[[Category: Fersht, A R]]		[[Category: Fersht, A R]]
	[[Category: Harpaz, Y]]		[[Category: Harpaz, Y]]
	[[Category: Henrick, K]]		[[Category: Henrick, K]]

OCA at 07:02, 29 November 2017

OCA — Wed, 29 Nov 2017 07:02:48 GMT

←Older revision		Revision as of 07:02, 29 November 2017
Line 1:		Line 1:
		+
	==DIRECT OBSERVATION OF BETTER HYDRATION AT THE N-TERMINUS OF AN ALPHA-HELIX WITH GLYCINE RATHER THAN ALANINE AS N-CAP==		==DIRECT OBSERVATION OF BETTER HYDRATION AT THE N-TERMINUS OF AN ALPHA-HELIX WITH GLYCINE RATHER THAN ALANINE AS N-CAP==
	<StructureSection load='1ypb' size='340' side='right' caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1ypb' size='340' side='right' caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Barley Barley]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YPB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Barley Barley]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YPB FirstGlance]. <br>
-	</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=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [http://pdbe.org/1ypb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [http://www.ebi.ac.uk/pdbsum/1ypb PDBsum]</span></td></tr>	+	</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=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [http://pdbe.org/1ypb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [http://www.ebi.ac.uk/pdbsum/1ypb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ypb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1ypb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 26:		Line 27:
	</div>		</div>
	<div class="pdbe-citations 1ypb" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1ypb" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Chymotrypsin Inhibitor\|Chymotrypsin Inhibitor]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 01:20, 12 September 2015

OCA — Sat, 12 Sep 2015 01:20:27 GMT

←Older revision		Revision as of 01:20, 12 September 2015
Line 2:		Line 2:
	<StructureSection load='1ypb' size='340' side='right' caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1ypb' size='340' side='right' caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Hordeum_vulgare Hordeum vulgare~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YPB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Barley Barley]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YPB FirstGlance]. <br>
-	</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=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [http://www.ebi.ac.uk/pdbsum/1ypb PDBsum]</span></td></tr>	+	</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=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [http://pdbe.org/1ypb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [http://www.ebi.ac.uk/pdbsum/1ypb PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 25:		Line 25:
	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 1ypb" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Hordeum vulgare~~]]	+	[[Category: Barley]]
	[[Category: Elmasry, N]]		[[Category: Elmasry, N]]
	[[Category: Fersht, A R]]		[[Category: Fersht, A R]]
	[[Category: Harpaz, Y]]		[[Category: Harpaz, Y]]
	[[Category: Henrick, K]]		[[Category: Henrick, K]]

OCA at 21:55, 25 December 2014

OCA — Thu, 25 Dec 2014 21:55:30 GMT

←Older revision		Revision as of 21:55, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YPB FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YPB FirstGlance]. <br>
-	</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=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [http://www.ebi.ac.uk/pdbsum/1ypb PDBsum]</span></td></tr>	+	</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=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [http://www.ebi.ac.uk/pdbsum/1ypb PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ICI2_HORVU ICI2_HORVU]] Inhibits both subtilisin and chymotrypsin.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Hordeum vulgare]]		[[Category: Hordeum vulgare]]
-	[[Category: Elmasry, N.]]	+	[[Category: Elmasry, N]]
-	[[Category: Fersht, A R.]]	+	[[Category: Fersht, A R]]
-	[[Category: Harpaz, Y.]]	+	[[Category: Harpaz, Y]]
-	[[Category: Henrick, K.]]	+	[[Category: Henrick, K]]

OCA at 23:13, 28 September 2014

OCA — Sun, 28 Sep 2014 23:13:56 GMT

←Older revision		Revision as of 23:13, 28 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1ypb.~~png\|left~~\|200px]]	+	==DIRECT OBSERVATION OF BETTER HYDRATION AT THE N-TERMINUS OF AN ALPHA-HELIX WITH GLYCINE RATHER THAN ALANINE AS N-CAP==
		+	<StructureSection load='1ypb' size='340' side='right' caption='[[1ypb]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1ypb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YPB FirstGlance]. <br>
		+	</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=1ypb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ypb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ypb RCSB], [http://www.ebi.ac.uk/pdbsum/1ypb 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/yp/1ypb_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The structural basis for the stability of N termini of helices has been analyzed by thermodynamic and crystallographic studies of three suitably engineered mutants of the barley chymotrypsin inhibitor 2 with Ser, Gly, or Ala at the N-cap position (residue 31). Each mutant has a well-organized shell of hydration of the terminal NH groups of the helix. The three structures are virtually superimposable (rms separations for all atoms, including the common water molecules, are 0.15-0.17 A) and show neither changes in conformation at the site of substitution nor changes in the crystal packing. The only changes on going from Ser-31 to Ala-31 to Gly-31 are in the position of a water molecule (Wat-116). This is bound to the Ser-O gamma atom in the Ser-31 structure but is in a weak hydrogen bonding position with the NH of residue 34 (O ... N = 3.28 A) in the Ala-31 mutant, partly replacing the strong Ser-31-O gamma ... N34 hydrogen bond (O ... N = 2.65 A). The corresponding water molecule completely replaces the Ser hydroxyl hydrogen bond to N34 on mutation to Gly (2.74 A). The only other change between the three structures is an additional water molecule in the Ala-31 structure (Wat-150) that partly compensates for the weak Wat-116 ... N34 hydrogen bond. Perturbation of solvation by the side chain of Ala is consistent with earlier hypotheses on the importance of exposure of the termini of helices to the aqueous solvent.

-	~~{{STRUCTURE_1ypb\| PDB=1ypb \| SCENE= }}~~	+	Direct observation of better hydration at the N terminus of an alpha-helix with glycine rather than alanine as the N-cap residue.,Harpaz Y, Elmasry N, Fersht AR, Henrick K Proc Natl Acad Sci U S A. 1994 Jan 4;91(1):311-5. PMID:8278384<ref>PMID:8278384</ref>

-	~~===DIRECT OBSERVATION OF BETTER HYDRATION AT THE N-TERMINUS OF AN ALPHA-HELIX WITH GLYCINE RATHER THAN ALANINE AS N-CAP===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_8278384}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1ypb]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Hordeum_vulgare Hordeum vulgare]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA].~~	+

	==See Also==		==See Also==
	*[[Chymotrypsin Inhibitor\|Chymotrypsin Inhibitor]]		*[[Chymotrypsin Inhibitor\|Chymotrypsin Inhibitor]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:008278384<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Hordeum vulgare]]		[[Category: Hordeum vulgare]]
	[[Category: Elmasry, N.]]		[[Category: Elmasry, N.]]

OCA at 22:07, 20 October 2012

OCA — Sat, 20 Oct 2012 22:07:02 GMT

←Older revision		Revision as of 22:07, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1ypb]] is a 1 chain structure ~~of [[Chymotrypsin Inhibitor]]~~ with sequence from [http://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA].	+	[[1ypb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YPB OCA].

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

OCA at 15:18, 27 July 2012

OCA — Fri, 27 Jul 2012 15:18:05 GMT

←Older revision		Revision as of 15:18, 27 July 2012
Line 1:		Line 1:
	[[Image:1ypb.png\|left\|200px]]		[[Image:1ypb.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1ypb", 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_1ypb\| PDB=1ypb \| SCENE= }}		{{STRUCTURE_1ypb\| PDB=1ypb \| SCENE= }}

	===DIRECT OBSERVATION OF BETTER HYDRATION AT THE N-TERMINUS OF AN ALPHA-HELIX WITH GLYCINE RATHER THAN ALANINE AS N-CAP===		===DIRECT OBSERVATION OF BETTER HYDRATION AT THE N-TERMINUS OF AN ALPHA-HELIX WITH GLYCINE RATHER THAN ALANINE AS N-CAP===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_8278384}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 8278384 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_8278384}}		{{ABSTRACT_PUBMED_8278384}}

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	==See Also==		==See Also==
-	*[[Chymotrypsin Inhibitor]]	+	*[[Chymotrypsin Inhibitor\|Chymotrypsin Inhibitor]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~8278384~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:008278384</ref><references group="xtra"/>
	[[Category: Hordeum vulgare]]		[[Category: Hordeum vulgare]]
	[[Category: Elmasry, N.]]		[[Category: Elmasry, N.]]

OCA: Protected "1ypb" [edit=sysop:move=sysop]

OCA — Mon, 27 Dec 2010 02:19:31 GMT

Protected "1ypb" [edit=sysop:move=sysop]

←Older revision

Revision as of 02:19, 27 December 2010