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2gaz

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[[Image:2gaz.gif|left|200px]]<br /><applet load="2gaz" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:2gaz.gif|left|200px]]
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caption="2gaz, resolution 2.61&Aring;" />
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'''Mycobacterial lipoglycan presentation by CD1d'''<br />
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{{Structure
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|PDB= 2gaz |SIZE=350|CAPTION= <scene name='initialview01'>2gaz</scene>, resolution 2.61&Aring;
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|SITE=
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|LIGAND= <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene> and <scene name='pdbligand=XPX:(2R)-3-[(HYDROXY{[(2R,3R,5S,6R)-3,4,5-TRIHYDROXY-2,6-BIS(ALPHA-D-MANNOPYRANOSYLOXY)CYCLOHEXYL]OXY}PHOSPHORYL)OXY]PROPANE-1,2-DIYL DIHEXADECANOATE'>XPX</scene>
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|ACTIVITY=
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|GENE= Cd1d1, Cd1.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]), B2m ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])
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}}
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'''Mycobacterial lipoglycan presentation by CD1d'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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2GAZ is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] with <scene name='pdbligand=NAG:'>NAG</scene> and <scene name='pdbligand=XPX:'>XPX</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GAZ OCA].
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2GAZ is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GAZ OCA].
==Reference==
==Reference==
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Structural characterization of mycobacterial phosphatidylinositol mannoside binding to mouse CD1d., Zajonc DM, Ainge GD, Painter GF, Severn WB, Wilson IA, J Immunol. 2006 Oct 1;177(7):4577-83. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16982895 16982895]
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Structural characterization of mycobacterial phosphatidylinositol mannoside binding to mouse CD1d., Zajonc DM, Ainge GD, Painter GF, Severn WB, Wilson IA, J Immunol. 2006 Oct 1;177(7):4577-83. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16982895 16982895]
[[Category: Mus musculus]]
[[Category: Mus musculus]]
[[Category: Protein complex]]
[[Category: Protein complex]]
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[[Category: lipid antigen presentation]]
[[Category: lipid antigen presentation]]
[[Category: mycobacteria]]
[[Category: mycobacteria]]
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[[Category: nkt cells]]
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[[Category: nkt cell]]
[[Category: tcr]]
[[Category: tcr]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 17:29:55 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 17:02:30 2008''

Revision as of 15:02, 20 March 2008

Image:2gaz.gif


PDB ID 2gaz

Drag the structure with the mouse to rotate
, resolution 2.61Å
Ligands: and
Gene: Cd1d1, Cd1.1 (Mus musculus), B2m (Mus musculus)
Coordinates: save as pdb, mmCIF, xml



Mycobacterial lipoglycan presentation by CD1d


Overview

Mycobacterial phosphatidylinositol tetramannosides (PIM4) are agonists for a distinct population of invariant human (Valpha24) and mouse (Valpha14) NKT cells, when presented by CD1d. We determined the crystal structure at 2.6-A resolution of mouse CD1d bound to a synthetic dipalmitoyl-PIM2. Natural PIM2, which differs in its fatty acid composition is a biosynthetic precursor of PIM4, PIM6, lipomannan, and lipoarabinomannan. The PIM2 headgroup (inositol-dimannoside) is the most complex to date among all the crystallized CD1d ligands and is remarkably ordered in the CD1d binding groove. A specific hydrogen-bonding network between PIM2 and CD1d orients the headgroup in the center of the binding groove and above the A' pocket. A central cluster of hydrophilic CD1d residues (Asp(153), Thr(156), Ser(76), Arg(79)) interacts with the phosphate, inositol, and alpha1-alpha6-linked mannose of the headgroup, whereas additional specificity for the alpha1- and alpha2-linked mannose is conferred by Thr(159). The additional two mannoses in PIM4, relative to PIM2, are located at the distal 6' carbon of the alpha1-alpha6-linked mannose and would project away from the CD1d binding groove for interaction with the TCR. Compared with other CD1d-sphingolipid structures, PIM2 has an increased number of polar interactions between its headgroup and CD1, but reduced specificity for the diacylglycerol backbone. Thus, novel NKT cell agonists can be designed that focus on substitutions of the headgroup rather than on reducing lipid chain length, as in OCH and PBS-25, two potent variants of the highly stimulatory invariant NKT cell agonist alpha-galactosylceramide.

About this Structure

2GAZ is a Protein complex structure of sequences from Mus musculus. Full crystallographic information is available from OCA.

Reference

Structural characterization of mycobacterial phosphatidylinositol mannoside binding to mouse CD1d., Zajonc DM, Ainge GD, Painter GF, Severn WB, Wilson IA, J Immunol. 2006 Oct 1;177(7):4577-83. PMID:16982895

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