3pbf - Revision history

OCA at 09:50, 6 September 2023

2023-09-06T09:50:59Z

←Older revision		Revision as of 09:50, 6 September 2023
Line 3:		Line 3:
	<StructureSection load='3pbf' size='340' side='right'caption='[[3pbf]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3pbf' size='340' side='right'caption='[[3pbf]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pbf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PBF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pbf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PBF FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.8Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1r13\|1r13]], [[1r14\|1r14]], [[3pak\|3pak]], [[3paq\|3paq]], [[3par\|3par]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">Sftp-1, Sftp1, Sftpa, Sftpa1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])~~</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=3pbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pbf OCA], [https://pdbe.org/3pbf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pbf RCSB], [https://www.ebi.ac.uk/pdbsum/3pbf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pbf 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=3pbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pbf OCA], [https://pdbe.org/3pbf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pbf RCSB], [https://www.ebi.ac.uk/pdbsum/3pbf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pbf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/SFTPA_RAT SFTPA_RAT]] In presence of calcium ions, it binds to surfactant phospholipids and contributes to lower the surface tension at the air-liquid interface in the alveoli of the mammalian lung and is essential for normal respiration.	+	[https://www.uniprot.org/uniprot/SFTPA_RAT SFTPA_RAT] In presence of calcium ions, it binds to surfactant phospholipids and contributes to lower the surface tension at the air-liquid interface in the alveoli of the mammalian lung and is essential for normal respiration.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Buffalo rat]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cafarella~~, T M~~]]	+	[[Category: Rattus norvegicus]]
-	[[Category: Head, J]]	+	[[Category: Cafarella TM]]
-	[[Category: McCormack~~, F X~~]]	+	[[Category: Head J]]
-	[[Category: Rynkiewicz~~, M J~~]]	+	[[Category: McCormack FX]]
-	[[Category: Seaton~~, B A~~]]	+	[[Category: Rynkiewicz MJ]]
-	[[Category: Shang, F]]	+	[[Category: Seaton BA]]
-	[[Category: Wu, H]]	+	[[Category: Shang F]]
-	~~[[Category: Carbohydrate binding]]~~	+	[[Category: Wu H]]
-	~~[[Category: Collectin]]~~	+
-	~~[[Category: Lectin]]~~	+
-	~~[[Category: Mannose]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 08:32, 25 May 2022

2022-05-25T08:32:43Z

←Older revision		Revision as of 08:32, 25 May 2022
Line 1:		Line 1:

	==Surfactant Protein-A neck and carbohydrate recognition domain (NCRD) complexed with glycerol==		==Surfactant Protein-A neck and carbohydrate recognition domain (NCRD) complexed with glycerol==
-	<StructureSection load='3pbf' size='340' side='right' caption='[[3pbf]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='3pbf' size='340' side='right'caption='[[3pbf]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pbf]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3PBF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pbf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PBF FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r13\|1r13]], [[1r14\|1r14]], [[3pak\|3pak]], [[3paq\|3paq]], [[3par\|3par]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1r13\|1r13]], [[1r14\|1r14]], [[3pak\|3pak]], [[3paq\|3paq]], [[3par\|3par]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sftp-1, Sftp1, Sftpa, Sftpa1 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sftp-1, Sftp1, Sftpa, Sftpa1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=3pbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pbf OCA], [~~http~~://pdbe.org/3pbf PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3pbf RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3pbf PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3pbf 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=3pbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pbf OCA], [https://pdbe.org/3pbf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pbf RCSB], [https://www.ebi.ac.uk/pdbsum/3pbf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pbf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/SFTPA_RAT SFTPA_RAT]] In presence of calcium ions, it binds to surfactant phospholipids and contributes to lower the surface tension at the air-liquid interface in the alveoli of the mammalian lung and is essential for normal respiration.	+	[[https://www.uniprot.org/uniprot/SFTPA_RAT SFTPA_RAT]] In presence of calcium ions, it binds to surfactant phospholipids and contributes to lower the surface tension at the air-liquid interface in the alveoli of the mammalian lung and is essential for normal respiration.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Buffalo rat]]		[[Category: Buffalo rat]]
		+	[[Category: Large Structures]]
	[[Category: Cafarella, T M]]		[[Category: Cafarella, T M]]
	[[Category: Head, J]]		[[Category: Head, J]]

OCA at 21:37, 4 August 2016

2016-08-04T21:37:33Z

←Older revision		Revision as of 21:37, 4 August 2016
Line 1:		Line 1:
		+
	==Surfactant Protein-A neck and carbohydrate recognition domain (NCRD) complexed with glycerol==		==Surfactant Protein-A neck and carbohydrate recognition domain (NCRD) complexed with glycerol==
	<StructureSection load='3pbf' size='340' side='right' caption='[[3pbf]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='3pbf' size='340' side='right' caption='[[3pbf]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pbf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rattus_norvegicus Rattus norvegicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PBF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pbf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PBF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r13\|1r13]], [[1r14\|1r14]], [[3pak\|3pak]], [[3paq\|3paq]], [[3par\|3par]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r13\|1r13]], [[1r14\|1r14]], [[3pak\|3pak]], [[3paq\|3paq]], [[3par\|3par]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sftp-1, Sftp1, Sftpa, Sftpa1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 ~~Rattus norvegicus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sftp-1, Sftp1, Sftpa, Sftpa1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=3pbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pbf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pbf RCSB], [http://www.ebi.ac.uk/pdbsum/3pbf 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=3pbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pbf OCA], [http://pdbe.org/3pbf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pbf RCSB], [http://www.ebi.ac.uk/pdbsum/3pbf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pbf ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 3pbf" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rattus norvegicus~~]]	+	[[Category: Buffalo rat]]
	[[Category: Cafarella, T M]]		[[Category: Cafarella, T M]]
	[[Category: Head, J]]		[[Category: Head, J]]

OCA at 19:53, 24 December 2014

2014-12-24T19:53:38Z

←Older revision		Revision as of 19:53, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3pbf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PBF FirstGlance]. <br>		<table><tr><td colspan='2'>[[3pbf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PBF FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r13\|1r13]], [[1r14\|1r14]], [[3pak\|3pak]], [[3paq\|3paq]], [[3par\|3par]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r13\|1r13]], [[1r14\|1r14]], [[3pak\|3pak]], [[3paq\|3paq]], [[3par\|3par]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sftp-1, Sftp1, Sftpa, Sftpa1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sftp-1, Sftp1, Sftpa, Sftpa1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</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=3pbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pbf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pbf RCSB], [http://www.ebi.ac.uk/pdbsum/3pbf 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=3pbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pbf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pbf RCSB], [http://www.ebi.ac.uk/pdbsum/3pbf PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SFTPA_RAT SFTPA_RAT]] In presence of calcium ions, it binds to surfactant phospholipids and contributes to lower the surface tension at the air-liquid interface in the alveoli of the mammalian lung and is essential for normal respiration.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 16:
	Crystallographic Complexes of Surfactant Protein A and Carbohydrates Reveal Ligand-induced Conformational Change.,Shang F, Rynkiewicz MJ, McCormack FX, Wu H, Cafarella TM, Head JF, Seaton BA J Biol Chem. 2011 Jan 7;286(1):757-65. Epub 2010 Nov 3. PMID:21047777<ref>PMID:21047777</ref>		Crystallographic Complexes of Surfactant Protein A and Carbohydrates Reveal Ligand-induced Conformational Change.,Shang F, Rynkiewicz MJ, McCormack FX, Wu H, Cafarella TM, Head JF, Seaton BA J Biol Chem. 2011 Jan 7;286(1):757-65. Epub 2010 Nov 3. PMID:21047777<ref>PMID:21047777</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 21:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
-	[[Category: Cafarella, T M.]]	+	[[Category: Cafarella, T M]]
-	[[Category: Head, J.]]	+	[[Category: Head, J]]
-	[[Category: McCormack, F X.]]	+	[[Category: McCormack, F X]]
-	[[Category: Rynkiewicz, M J.]]	+	[[Category: Rynkiewicz, M J]]
-	[[Category: Seaton, B A.]]	+	[[Category: Seaton, B A]]
-	[[Category: Shang, F.]]	+	[[Category: Shang, F]]
-	[[Category: Wu, H.]]	+	[[Category: Wu, H]]
	[[Category: Carbohydrate binding]]		[[Category: Carbohydrate binding]]
	[[Category: Collectin]]		[[Category: Collectin]]

OCA at 05:30, 4 June 2014

2014-06-04T05:30:19Z

←Older revision		Revision as of 05:30, 4 June 2014
Line 1:		Line 1:
-	[[~~Image:~~3pbf.~~png~~\|~~left~~\|~~200px~~]]	+	==Surfactant Protein-A neck and carbohydrate recognition domain (NCRD) complexed with glycerol==
		+	<StructureSection load='3pbf' size='340' side='right' caption='[[3pbf]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3pbf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PBF FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1r13\|1r13]], [[1r14\|1r14]], [[3pak\|3pak]], [[3paq\|3paq]], [[3par\|3par]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sftp-1, Sftp1, Sftpa, Sftpa1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</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=3pbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pbf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pbf RCSB], [http://www.ebi.ac.uk/pdbsum/3pbf PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Surfactant protein A (SP-A), a C-type lectin, plays an important role in innate lung host defense against inhaled pathogens. Crystallographic SP-A.ligand complexes have not been reported to date, limiting available molecular information about SP-A interactions with microbial surface components. This study describes crystal structures of calcium-dependent complexes of the C-terminal neck and carbohydrate recognition domain of SP-A with d-mannose, d-alpha-methylmannose, and glycerol, which represent subdomains of glycans on pathogen surfaces. Comparison of these complexes with the unliganded SP-A neck and carbohydrate recognition domain revealed an unexpected ligand-associated conformational change in the loop region surrounding the lectin site, one not previously reported for the lectin homologs SP-D and mannan-binding lectin. The net result of the conformational change is that the SP-A lectin site and the surrounding loop region become more compact. The Glu-202 side chain of unliganded SP-A extends out into the solvent and away from the calcium ion; however, in the complexes, the Glu-202 side chain translocates 12.8 A to bind the calcium. The availability of Glu-202, together with positional changes involving water molecules, creates a more favorable hydrogen bonding environment for carbohydrate ligands. The Lys-203 side chain reorients as well, extending outward into the solvent in the complexes, thereby opening up a small cation-friendly cavity occupied by a sodium ion. Binding of this cation brings the large loop, which forms one wall of the lectin site, and the adjacent small loop closer together. The ability to undergo conformational changes may help SP-A adapt to different ligand classes, including microbial glycolipids and surfactant lipids.

-	~~{{STRUCTURE_3pbf\| PDB=3pbf \| SCENE= }}~~	+	Crystallographic Complexes of Surfactant Protein A and Carbohydrates Reveal Ligand-induced Conformational Change.,Shang F, Rynkiewicz MJ, McCormack FX, Wu H, Cafarella TM, Head JF, Seaton BA J Biol Chem. 2011 Jan 7;286(1):757-65. Epub 2010 Nov 3. PMID:21047777<ref>PMID:21047777</ref>

-	~~===Surfactant Protein-A neck and carbohydrate recognition domain (NCRD) complexed with glycerol===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21047777}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3pbf]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Rattus_norvegicus Rattus norvegicus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:021047777<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
	[[Category: Cafarella, T M.]]		[[Category: Cafarella, T M.]]

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

2012-08-01T04:58:33Z

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

←Older revision

Revision as of 04:58, 1 August 2012

OCA at 04:58, 1 August 2012

2012-08-01T04:58:31Z

←Older revision		Revision as of 04:58, 1 August 2012
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-	~~{{Seed}}~~	+	[[Image:3pbf.png\|left\|200px]]
-	[[Image:3pbf.~~jpg~~\|left\|200px]]	+

-	<!--
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-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
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	{{STRUCTURE_3pbf\| PDB=3pbf \| SCENE= }}		{{STRUCTURE_3pbf\| PDB=3pbf \| SCENE= }}

	===Surfactant Protein-A neck and carbohydrate recognition domain (NCRD) complexed with glycerol===		===Surfactant Protein-A neck and carbohydrate recognition domain (NCRD) complexed with glycerol===

		+	{{ABSTRACT_PUBMED_21047777}}

	==About this Structure==		==About this Structure==
-	~~3PBF~~ is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA].	+	[[3pbf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PBF OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021047777</ref><references group="xtra"/>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
	[[Category: Cafarella, T M.]]		[[Category: Cafarella, T M.]]
Line 28:		Line 25:
	[[Category: Mannose]]		[[Category: Mannose]]
	[[Category: Sugar binding protein]]		[[Category: Sugar binding protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 3 11:16:43 2010''

OCA: New page: {{Seed}} 200px