5vbg - Revision history

OCA at 13:45, 4 October 2023

OCA — Wed, 04 Oct 2023 13:45:20 GMT

←Older revision		Revision as of 13:45, 4 October 2023
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	==Crystal Structure of full-length LpoA, Monoclinic form 1, from Haemophilus influenzae==		==Crystal Structure of full-length LpoA, Monoclinic form 1, from Haemophilus influenzae==
-	<StructureSection load='5vbg' size='340' side='right' caption='[[5vbg]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='5vbg' size='340' side='right'caption='[[5vbg]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vbg]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Haein Haein~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VBG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5VBG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vbg]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Haemophilus_influenzae_Rd_KW20 Haemophilus influenzae Rd KW20]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VBG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5VBG FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=CL:CHLORIDE+ION'>CL</scene~~></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]] 2.8Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat">[[5kcn\|5kcn]], [[5vat\|5vat]]</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=5vbg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vbg OCA], [https://pdbe.org/5vbg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5vbg RCSB], [https://www.ebi.ac.uk/pdbsum/5vbg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5vbg ProSAT]</span></td></tr>
-	~~<tr id='gene~~'>~~<td class="sblockLbl"><b>[[Gene\|Gene:]]~~</b>~~</td><td class="sblockDat">lpoA, HI_1655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=71421 HAEIN])~~</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=5vbg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vbg OCA], [~~http~~://pdbe.org/5vbg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5vbg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5vbg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5vbg ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/LPOA_HAEIN LPOA_HAEIN]] Regulator of peptidoglycan synthesis that is essential for the function of penicillin-binding protein 1A (PBP1a).	+	[https://www.uniprot.org/uniprot/LPOA_HAEIN LPOA_HAEIN] Regulator of peptidoglycan synthesis that is essential for the function of penicillin-binding protein 1A (PBP1a).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Haein~~]]	+	[[Category: Haemophilus influenzae Rd KW20]]
-	[[Category: ~~Saper, M A~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Sathiyamoorthy, K~~]]	+	[[Category: Saper MA]]
-	[[Category: ~~Biosynthetic protein]]~~	+	[[Category: Sathiyamoorthy K]]
-	~~[[Category: Gram-negative bacteria]]~~	+
-	~~[[Category: Lipoprotein activator of pbp1a]]~~	+
-	~~[[Category: Outer membrane lipoprotein]]~~	+
-	~~[[Category: Peptidoglycan~~]]	+

OCA at 10:23, 8 November 2017

OCA — Wed, 08 Nov 2017 10:23:48 GMT

←Older revision		Revision as of 10:23, 8 November 2017
Line 3:		Line 3:
	<StructureSection load='5vbg' size='340' side='right' caption='[[5vbg]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='5vbg' size='340' side='right' caption='[[5vbg]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vbg]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VBG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VBG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vbg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Haein Haein]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VBG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VBG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kcn\|5kcn]], [[5vat\|5vat]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kcn\|5kcn]], [[5vat\|5vat]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lpoA, HI_1655 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=71421 HAEIN])</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=5vbg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vbg OCA], [http://pdbe.org/5vbg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vbg RCSB], [http://www.ebi.ac.uk/pdbsum/5vbg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vbg ProSAT]</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=5vbg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vbg OCA], [http://pdbe.org/5vbg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vbg RCSB], [http://www.ebi.ac.uk/pdbsum/5vbg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vbg ProSAT]</span></td></tr>
	</table>		</table>
Line 24:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Haein]]
	[[Category: Saper, M A]]		[[Category: Saper, M A]]
	[[Category: Sathiyamoorthy, K]]		[[Category: Sathiyamoorthy, K]]

OCA at 10:26, 27 September 2017

OCA — Wed, 27 Sep 2017 10:26:40 GMT

←Older revision		Revision as of 10:26, 27 September 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5vbg is ~~ON HOLD~~	+	==Crystal Structure of full-length LpoA, Monoclinic form 1, from Haemophilus influenzae==
		+	<StructureSection load='5vbg' size='340' side='right' caption='[[5vbg]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5vbg]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VBG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VBG FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kcn\|5kcn]], [[5vat\|5vat]]</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=5vbg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vbg OCA], [http://pdbe.org/5vbg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vbg RCSB], [http://www.ebi.ac.uk/pdbsum/5vbg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vbg ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LPOA_HAEIN LPOA_HAEIN]] Regulator of peptidoglycan synthesis that is essential for the function of penicillin-binding protein 1A (PBP1a).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In many Gram-negative bacteria, the peptidoglycan synthase PBP1A requires the outer membrane lipoprotein LpoA for constructing a functional peptidoglycan required for bacterial viability. Previously, we have shown that the C-terminal domain of Haemophilus influenzae LpoA (HiLpoA) has a highly conserved, putative substrate-binding cleft between two alpha/beta lobes. Here, we report a 2.0-A-resolution crystal structure of the HiLpoA N-terminal domain. Two subdomains contain tetratricopeptide-like motifs that form a concave groove, but their relative orientation differs by ~45 degrees from that observed in an NMR structure of the Escherichia coli LpoA N domain. We also determined three 2.0-2.8-A-resolution crystal structures containing four independent full-length HiLpoA molecules. In contrast to an elongated model previously suggested for E. coli LpoA, each HiLpoA formed a U-shaped structure with a different C-domain orientation. This resulted from both N-domain twisting and rotation of the C domain (up to 30 degrees ) at the end of the relatively immobile interdomain linker. Moreover, a previously predicted hinge between the lobes of the LpoA C domain exhibited variations of up to 12 degrees . Small-angle X-ray scattering (SAXS) data revealed excellent agreement with a model calculated by normal mode analysis (NMA) from one of the full-length HiLpoA molecules, but even better agreement with an ensemble of this molecule and two of the partially extended NMA-predicted models. The different LpoA structures helped explain how an outer membrane-anchored LpoA can either withdraw from or extend toward the inner membrane-bound PBP1A through peptidoglycan gaps and hence regulate the synthesis of peptidoglycan necessary for bacterial viability.

-	~~Authors: Sathiyamoorthy~~, K., ~~Saper~~, M.A.	+	Structural analyses of the Haemophilus influenzae peptidoglycan synthase activator LpoA suggest multiple conformations in solution.,Sathiyamoorthy K, Vijayalakshmi J, Tirupati B, Fan L, Saper MA J Biol Chem. 2017 Sep 8. pii: jbc.M117.804997. doi: 10.1074/jbc.M117.804997. PMID:28887305<ref>PMID:28887305</ref>

-	~~Description: Crystal Structure of full-length LpoA~~, ~~Monoclinic form 1, from Haemophilus influenzae~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: Saper, M.A]]	+	<div class="pdbe-citations 5vbg" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Saper, M A]]
	[[Category: Sathiyamoorthy, K]]		[[Category: Sathiyamoorthy, K]]
		+	[[Category: Biosynthetic protein]]
		+	[[Category: Gram-negative bacteria]]
		+	[[Category: Lipoprotein activator of pbp1a]]
		+	[[Category: Outer membrane lipoprotein]]
		+	[[Category: Peptidoglycan]]

OCA at 09:48, 12 April 2017

OCA — Wed, 12 Apr 2017 09:48:48 GMT

←Older revision		Revision as of 09:48, 12 April 2017
Line 3:		Line 3:
	The entry 5vbg is ON HOLD		The entry 5vbg is ON HOLD

-	Authors: Sathiyamoorthy, K, Saper, M.A.	+	Authors: Sathiyamoorthy, K., Saper, M.A.

	Description: Crystal Structure of full-length LpoA, Monoclinic form 1, from Haemophilus influenzae		Description: Crystal Structure of full-length LpoA, Monoclinic form 1, from Haemophilus influenzae
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: ~~Sathiyamoorthy, K,~~ Saper, M.A]]	+	[[Category: Saper, M.A]]
		+	[[Category: Sathiyamoorthy, K]]

OCA: Protected "5vbg" [edit=sysop:move=sysop]

OCA — Wed, 05 Apr 2017 11:53:31 GMT

Protected "5vbg" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:53, 5 April 2017

OCA: New page: '''Unreleased structure''' The entry 5vbg is ON HOLD Authors: Sathiyamoorthy, K, Saper, M.A. Description: Crystal Structure of full-length LpoA, Monoclinic form 1, from Haemophilus inf...

OCA — Wed, 05 Apr 2017 11:53:30 GMT

New page: '''Unreleased structure''' The entry 5vbg is ON HOLD Authors: Sathiyamoorthy, K, Saper, M.A. Description: Crystal Structure of full-length LpoA, Monoclinic form 1, from Haemophilus inf...

New page

'''Unreleased structure'''

The entry 5vbg is ON HOLD

Authors: Sathiyamoorthy, K, Saper, M.A.

Description: Crystal Structure of full-length LpoA, Monoclinic form 1, from Haemophilus influenzae
[[Category: Unreleased Structures]]
[[Category: Sathiyamoorthy, K, Saper, M.A]]