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PDBsum entry 1bog
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Complex (antibody/peptide)
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PDB id
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1bog
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Contents |
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214 a.a.
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213 a.a.
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11 a.a.
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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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Crystallographic analysis of anti-P24 (HIV-1) monoclonal antibody cross-Reactivity and polyspecificity.
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Authors
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T.Keitel,
A.Kramer,
H.Wessner,
C.Scholz,
J.Schneider-Mergener,
W.Höhne.
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Ref.
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Cell, 1997,
91,
811-820.
[DOI no: ]
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PubMed id
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Abstract
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The X-ray crystal structures of an anti-p24 (HIV-1) monoclonal antibody Fab
fragment alone and in complexes with the epitope peptide GATPQDLNTnL (n =
norleucine), an epitope-homologous peptide GATPEDLNQKLAGN, as well as two
unrelated peptides GLYEWGGARITNTD and efslkGpllqwrsG (D-peptide), are presented
to a maximum resolution of 2.6 A. The latter three peptides were identified from
screening synthetic combinatorial peptide libraries. Although all peptides bind
to the same antigen combining site, the nonhomologous peptides adopt different
binding conformations and also form their critical contacts with different
antibody residues. Only small readjustments are observed within the framework of
the Fab fragment upon binding.
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Figure 1.
Figure 1. Difference Electron Density Map for the
h-pep/CB4-1 ComplexThe difference electron density was computed
with the 2.60 Å resolution structure amplitudes from the
CB4-1/h-pep crystal and with refined model phases from CB4-1.
Density is shown for >3σ.
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Figure 2.
Figure 2. Superposition of Variable Domains and Overlay of
Complexed Peptides(A) Variable domain superposition. Residues
from conserved β regions of V[L] (4–6, 20–25, 33–38,
45–48, 63–65, 70–74, 86–89, 102–104) were superimposed
to visualize the V[L]/V[H] rearrangements. The Cα framework
atoms are oriented with V[L] at the left. Peptides are omitted.
Uncomplexed CB4-1, black; complexed with e-pep, yellow; h-pep,
red; u-pep, purple; d-pep, green.(B) Peptide overlay.
Superposition of V[L] and V[H] domains was performed as
described in Table 2. Only the peptides are displayed: e-pep,
yellow; h-pep, red; u-pep, purple; d-pep, green (N terminus:
right). For a general overview of the peptides in complex with
CB4-1 Fab, see Figure 4 in [27].
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The above figures are
reprinted
by permission from Cell Press:
Cell
(1997,
91,
811-820)
copyright 1997.
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