1lnu: Difference between revisions

Revision as of 14:46, 21 February 2008

CRYSTAL STRUCTURE OF CLASS II MHC MOLECULE IAb BOUND TO EALPHA3K PEPTIDE

OverviewOverview

We have solved the crystal structure of the MHCII molecule, IA(b), containing an antigenic variant of the major IA(b)-binding peptide derived from the MHCII IEalpha chain. The four MHC pockets at p1, p4, p6, and p9 that usually bind peptide side chains are largely empty because of alanines in the peptide at these positions. The complex is nevertheless very stable, apparently because of unique alternate interactions between the IA(b) and peptide. In particular, there are multiple additional hydrogen bonds between the N-terminal end of the peptide and the IA(b) alpha chain and an extensive hydrogen bond network involving an asparagine at p7 position of the peptide and the IA(b) beta chain. By using knowledge of the shape and size of the traditional side chain binding pockets and the additional possible interactions, an IA(b) peptide-binding motif can be deduced that agrees well with the sequences of known IA(b)-binding peptides.

About this StructureAbout this Structure

1LNU is a Protein complex structure of sequences from Mus musculus with and as ligands. Full crystallographic information is available from OCA.

ReferenceReference

Alternate interactions define the binding of peptides to the MHC molecule IA(b)., Liu X, Dai S, Crawford F, Fruge R, Marrack P, Kappler J, Proc Natl Acad Sci U S A. 2002 Jun 25;99(13):8820-5. PMID:12084926

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 caption="1lnu, resolution 2.50&Aring;" />
 '''CRYSTAL STRUCTURE OF CLASS II MHC MOLECULE IAb BOUND TO EALPHA3K PEPTIDE'''<br />
 ==Overview==
-We have solved the crystal structure of the MHCII molecule, IA(b), containing an antigenic variant of the major IA(b)-binding peptide derived, from the MHCII IEalpha chain. The four MHC pockets at p1, p4, p6, and p9, that usually bind peptide side chains are largely empty because of, alanines in the peptide at these positions. The complex is nevertheless, very stable, apparently because of unique alternate interactions between, the IA(b) and peptide. In particular, there are multiple additional, hydrogen bonds between the N-terminal end of the peptide and the IA(b), alpha chain and an extensive hydrogen bond network involving an asparagine, at p7 position of the peptide and the IA(b) beta chain. By using knowledge, of the shape and size of the traditional side chain binding pockets and, the additional possible interactions, an IA(b) peptide-binding motif can, be deduced that agrees well with the sequences of known IA(b)-binding, peptides.
+We have solved the crystal structure of the MHCII molecule, IA(b), containing an antigenic variant of the major IA(b)-binding peptide derived from the MHCII IEalpha chain. The four MHC pockets at p1, p4, p6, and p9 that usually bind peptide side chains are largely empty because of alanines in the peptide at these positions. The complex is nevertheless very stable, apparently because of unique alternate interactions between the IA(b) and peptide. In particular, there are multiple additional hydrogen bonds between the N-terminal end of the peptide and the IA(b) alpha chain and an extensive hydrogen bond network involving an asparagine at p7 position of the peptide and the IA(b) beta chain. By using knowledge of the shape and size of the traditional side chain binding pockets and the additional possible interactions, an IA(b) peptide-binding motif can be deduced that agrees well with the sequences of known IA(b)-binding peptides.
 ==About this Structure==
-LNU 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 NAG and NDG as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1LNU OCA].
+LNU 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=NDG:'>NDG</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LNU OCA].
 ==Reference==
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 [[Category: t cell receptor]]
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