2ria
From Proteopedia
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| - | [[Image:2ria.jpg|left|200px]] | + | [[Image:2ria.jpg|left|200px]] |
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| - | '''Crystal structure of the trimeric neck and carbohydrate recognition domain of human surfactant protein D in complex with D-glycero-D-manno-heptose''' | + | {{Structure |
| + | |PDB= 2ria |SIZE=350|CAPTION= <scene name='initialview01'>2ria</scene>, resolution 1.800Å | ||
| + | |SITE= <scene name='pdbsite=AC1:289+Binding+Site+For+Residue+A+356'>AC1</scene>, <scene name='pdbsite=AC2:289+Binding+Site+For+Residue+B+356'>AC2</scene>, <scene name='pdbsite=AC3:289+Binding+Site+For+Residue+C+356'>AC3</scene>, <scene name='pdbsite=AC4:Ca+Binding+Site+For+Residue+A+401'>AC4</scene>, <scene name='pdbsite=AC5:Ca+Binding+Site+For+Residue+A+402'>AC5</scene>, <scene name='pdbsite=AC6:Ca+Binding+Site+For+Residue+A+403'>AC6</scene>, <scene name='pdbsite=AC7:Ca+Binding+Site+For+Residue+B+401'>AC7</scene>, <scene name='pdbsite=AC8:Ca+Binding+Site+For+Residue+B+402'>AC8</scene>, <scene name='pdbsite=AC9:Ca+Binding+Site+For+Residue+B+403'>AC9</scene>, <scene name='pdbsite=BC1:Ca+Binding+Site+For+Residue+C+401'>BC1</scene>, <scene name='pdbsite=BC2:Ca+Binding+Site+For+Residue+C+402'>BC2</scene> and <scene name='pdbsite=BC3:Ca+Binding+Site+For+Residue+C+403'>BC3</scene> | ||
| + | |LIGAND= <scene name='pdbligand=289:'>289</scene> and <scene name='pdbligand=CA:CALCIUM ION'>CA</scene> | ||
| + | |ACTIVITY= | ||
| + | |GENE= SFTPD, PSPD, SFTP4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]) | ||
| + | }} | ||
| + | |||
| + | '''Crystal structure of the trimeric neck and carbohydrate recognition domain of human surfactant protein D in complex with D-glycero-D-manno-heptose''' | ||
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==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 2RIA is a [ | + | 2RIA is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2RIA OCA]. |
==Reference== | ==Reference== | ||
| - | Recognition of heptoses and the inner core of bacterial lipopolysaccharides by surfactant protein d., Wang H, Head J, Kosma P, Brade H, Muller-Loennies S, Sheikh S, McDonald B, Smith K, Cafarella T, Seaton B, Crouch E, Biochemistry. 2008 Jan 15;47(2):710-20. Epub 2007 Dec 20. PMID:[http:// | + | Recognition of heptoses and the inner core of bacterial lipopolysaccharides by surfactant protein d., Wang H, Head J, Kosma P, Brade H, Muller-Loennies S, Sheikh S, McDonald B, Smith K, Cafarella T, Seaton B, Crouch E, Biochemistry. 2008 Jan 15;47(2):710-20. Epub 2007 Dec 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18092821 18092821] |
[[Category: Homo sapiens]] | [[Category: Homo sapiens]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
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[[Category: surfactant protein; carbohydrate recognition; domain trimeric]] | [[Category: surfactant protein; carbohydrate recognition; domain trimeric]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:36:20 2008'' |
Revision as of 16:36, 20 March 2008
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| , resolution 1.800Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | , , , , , , , , , , and | ||||||
| Ligands: | and | ||||||
| Gene: | SFTPD, PSPD, SFTP4 (Homo sapiens) | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of the trimeric neck and carbohydrate recognition domain of human surfactant protein D in complex with D-glycero-D-manno-heptose
Overview
Lipopolysaccharides (LPS) of Gram-negative bacteria are important mediators of bacterial virulence that can elicit potent endotoxic effects. Surfactant protein D (SP-D) shows specific interactions with LPS, both in vitro and in vivo. These interactions involve binding of the carbohydrate recognition domain (CRD) to LPS oligosaccharides (OS); however, little is known about the mechanisms of LPS recognition. Recombinant neck+CRDs (NCRDs) provide an opportunity to directly correlate binding interactions with a crystallographic analysis of the binding mechanism. In these studies, we examined the interactions of wild-type and mutant trimeric NCRDs with rough LPS (R-LPS). Although rat NCRDs bound more efficiently than human NCRDs to Escherichia coli J-5 LPS, both proteins exhibited efficient binding to solid-phase Rd2-LPS and to Rd2-LPS aggregates presented in the solution phase. Involvement of residues flanking calcium at the sugar binding site was demonstrated by reciprocal exchange of lysine and arginine at position 343 of rat and human CRDs. The lectin activity of hNCRDs was inhibited by specific heptoses, including l-glycero-alpha-d-manno-heptose (l,d-heptose), but not by 3-deoxy-alpha-d-manno-oct-2-ulosonic acid (Kdo). Crystallographic analysis of the hNCRD demonstrated a novel binding orientation for l,d-heptose, involving the hydroxyl groups of the side chain. Similar binding was observed for a synthetic alpha1-->3-linked heptose disaccharide corresponding to heptoses I and II of the inner core region in many LPS. 7-O-Carbamoyl-l,d-heptose and d-glycero-alpha-d-manno-heptose were bound via ring hydroxyl groups. Interactions with the side chain of inner core heptoses provide a potential mechanism for the recognition of diverse types of LPS by SP-D.
About this Structure
2RIA is a Single protein structure of sequence from Homo sapiens. Full crystallographic information is available from OCA.
Reference
Recognition of heptoses and the inner core of bacterial lipopolysaccharides by surfactant protein d., Wang H, Head J, Kosma P, Brade H, Muller-Loennies S, Sheikh S, McDonald B, Smith K, Cafarella T, Seaton B, Crouch E, Biochemistry. 2008 Jan 15;47(2):710-20. Epub 2007 Dec 20. PMID:18092821
Page seeded by OCA on Thu Mar 20 18:36:20 2008
