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PDBsum entry 12e8
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Immunoglobulin
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PDB id
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12e8
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Contents |
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* Residue conservation analysis
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References listed in PDB file
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Key reference
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Title
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Structure of a monoclonal 2e8 FAB antibody fragment specific for the low-Density lipoprotein-Receptor binding region of apolipoprotein e refined at 1.9 a.
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Authors
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S.Trakhanov,
S.Parkin,
R.Raffaï,
R.Milne,
Y.M.Newhouse,
K.H.Weisgraber,
B.Rupp.
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Ref.
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Acta Crystallogr D Biol Crystallogr, 1999,
55,
122-128.
[DOI no: ]
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PubMed id
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Note In the PDB file this reference is
annotated as "TO BE PUBLISHED".
The citation details given above were identified by an automated
search of PubMed on title and author
names, giving a
percentage match of
0%.
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Abstract
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The crystal structure of the Fab fragment of 2E8, the monoclonal IgG1,kappa
antibody specific for the low-density lipoprotein (LDL) receptor-binding region
of apolipoprotein E (apoE), has been solved by molecular replacement and refined
at 1.9 A resolution (PDB entry 12E8). Two 2E8 Fab molecules in the asymmetric
unit are related by noncrystallographic symmetry and are hydrogen bonded through
a beta-sheet-like intermolecular contact between the heavy-chain
complementarity-determining regions 3 (CDRH3) of each molecule. The structure
has been refined to an R value of 0.22 (Rfree = 0.27). The initially ill-defined
heavy-chain constant domain (CH1) of 2E8 has been retraced with the aid of
automatic refinement, confirming the beta-sheet tracing independently of any
starting models. As a resolution better than 2 A is not common for Fab
fragments, this model represents a well defined Fab structure and should prove
useful in MR solution of other Fab fragments. Furthermore, in the absence of an
LDL-receptor structure, the homology of the 2E8 CDRH2 to the ligand-binding
domain of the LDL receptor has been exploited to model the apoE-LDL-receptor
interaction.
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Figure 1.
Figure 1 Native Patterson map created by XtalView (McRee,
1992[McRee, D. E. (1992). J. Mol. Graph. 10, 44-46.]) showing
the strong Harker peak indicative of an NCS axis parallel to the
crystallographic 2[1] screw axis.
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Figure 4.
Figure 4 Ribbon representation of the topology of the 2E8 Fab
dimer. The two light chains (C[L] and V[L]) are red and yellow,
respectively, and the two heavy chains (C[H1] and V[H]) are blue
and green, respectively. The dimer interface is formed by the
complementarity-determining regions. The figure was created with
MOLSCRIPT (Kraulis, 1991[Kraulis, P. J. (1991). J. Appl. Cryst.
24, 946-950.]).
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The above figures are
reprinted
by permission from the IUCr:
Acta Crystallogr D Biol Crystallogr
(1999,
55,
122-128)
copyright 1999.
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