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PDBsum entry 1jtt
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Immune system, lysozyme
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PDB id
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1jtt
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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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Degenerate interfaces in antigen-Antibody complexes.
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Authors
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K.Decanniere,
T.R.Transue,
A.Desmyter,
D.Maes,
S.Muyldermans,
L.Wyns.
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Ref.
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J Mol Biol, 2001,
313,
473-478.
[DOI no: ]
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PubMed id
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Abstract
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In most of the work dealing with the analysis of protein-protein interfaces, a
single X-ray structure is available or selected, and implicitly it is assumed
that this structure corresponds to the optimal complex for this pair of
proteins. However, we have found a degenerate interface in a high-affinity
antibody-antigen complex: the two independent complexes of the camel variable
domain antibody fragment cAb-Lys3 and its antigen hen egg white lysozyme present
in the asymmetric unit of our crystals show a difference in relative orientation
between antibody and antigen, leading to important differences at the
protein-protein interface. A third cAb-Lys3-hen lysozyme complex in a different
crystal form adopts yet another relative orientation. Our results show that
protein-protein interface characteristics can vary significantly between
different specimens of the same high-affinity antibody-protein antigen complex.
Consideration should be given to this type of observation when trying to
establish general protein-protein interface characteristics.
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Figure 1.
Figure 1. Superposition of the hel1 and hel2 com-
plexes: (a) using all main-chain atoms; (b) using main-
chain atoms of cAb-Lys3 only; (c) superposition as in
(b), comparing the hel1 complex with the hel-C2 com-
plex; (d) superposition as in (b), comparing the tel1 and
tel2 complexes. cAb-Lys3 molecules are in grey and
dark green, lysozyme is in yellow and blue.
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Figure 2.
Figure 2. Differences in (a) buried surface area and (b)
Voronoi volume for the cAb-Lys3 interface atoms
between the hel1 and hel2 complex. Dark colours rep-
resent little or no change, light colours represent large
differences. CDR1 atoms are coloured blue, CDR2 atoms
are yellow, and the CDR3 atoms are red. Green halos
around CDR3 atoms indicate atoms making hydrogen
bonds with the antigen. Framework atoms are grey.
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The above figures are
reprinted
by permission from Elsevier:
J Mol Biol
(2001,
313,
473-478)
copyright 2001.
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Secondary reference #1
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Title
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Crystal structure of a camel single-Domain vh antibody fragment in complex with lysozyme.
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Authors
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A.Desmyter,
T.R.Transue,
M.A.Ghahroudi,
M.H.Thi,
F.Poortmans,
R.Hamers,
S.Muyldermans,
L.Wyns.
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Ref.
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Nat Struct Biol, 1996,
3,
803-811.
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PubMed id
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