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212 a.a.
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214 a.a.
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129 a.a.
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* Residue conservation analysis
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PDB id:
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Antibody/antigen
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Title:
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Structure of an anti-hel fab fragment complexed with bobwhite quail lysozyme
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Structure:
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Hyhel-5 fab (light chain). Chain: l. Engineered: yes. Hyhel-5 fab (heavy chain). Chain: h. Engineered: yes. Bobwhite quail lysozyme. Chain: y. Engineered: yes
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Source:
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Mus musculus. House mouse. Organism_taxid: 10090. Colinus virginianus. Northern bobwhite. Organism_taxid: 9014
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Biol. unit:
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Dimer (from
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Resolution:
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2.60Å
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R-factor:
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0.191
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R-free:
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0.291
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Authors:
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S.Chacko,D.R.Davies
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Key ref:
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S.Chacko
et al.
(1996).
Refined structures of bobwhite quail lysozyme uncomplexed and complexed with the HyHEL-5 Fab fragment.
Proteins,
26,
55-65.
PubMed id:
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Date:
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03-Feb-95
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Release date:
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20-Apr-95
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PROCHECK
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Headers
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References
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No UniProt id for this chain
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Enzyme class:
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Chain Y:
E.C.3.2.1.17
- lysozyme.
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Reaction:
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Hydrolysis of the 1,4-beta-linkages between N-acetyl-D-glucosamine and N-acetylmuramic acid in peptidoglycan heteropolymers of the prokaryotes cell walls.
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Proteins
26:55-65
(1996)
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PubMed id:
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Refined structures of bobwhite quail lysozyme uncomplexed and complexed with the HyHEL-5 Fab fragment.
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S.Chacko,
E.W.Silverton,
S.J.Smith-Gill,
D.R.Davies,
K.A.Shick,
K.A.Xavier,
R.C.Willson,
P.D.Jeffrey,
C.Y.Chang,
L.C.Sieker,
S.Sheriff.
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ABSTRACT
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The HyHEL-5 antibody has more than a thousandfold lower affinity for bobwhite
quail lysozyme (BWQL) than for hen egg-white lysozyme (HEL). Four sequence
differences exist between BWQL and HEL, of which only one is involved in the
interface with the Fab. The structure of bobwhite quail lysozyme has been
determined in the uncomplexed state in two different crystal forms and in the
complexed state with HyHEL-5, an antihen egg-white lysozyme Fab. Similar
backbone conformations are observed in the three molecules of the two crystal
forms of uncomplexed BWQL, although they show considerable variability in
side-chain conformation. A relatively mobile segment in uncomplexed BWQL is
observed to be part of the HyHEL-5 epitope. No major backbone conformational
differences are observed in the lysozyme upon complex formation, but side-chain
conformational differences are seen in surface residues that are involved in the
interface with the antibody. The hydrogen bonding in the interface between BWQL
and HyHEL-5 is similar to that in previously determined lysozyme-HyHEL-5
complexes.
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Literature references that cite this PDB file's key reference
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PubMed id
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Reference
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P.Scheerer,
A.Kramer,
L.Otte,
M.Seifert,
H.Wessner,
C.Scholz,
N.Krauss,
J.Schneider-Mergener,
and
W.Höhne
(2007).
Structure of an anti-cholera toxin antibody Fab in complex with an epitope-derived D-peptide: a case of polyspecific recognition.
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J Mol Recognit,
20,
263-274.
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PDB code:
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A.Schlessinger,
Y.Ofran,
G.Yachdav,
and
B.Rost
(2006).
Epitome: database of structure-inferred antigenic epitopes.
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Nucleic Acids Res,
34,
D777-D780.
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G.H.Cohen,
E.W.Silverton,
E.A.Padlan,
F.Dyda,
J.A.Wibbenmeyer,
R.C.Willson,
and
D.R.Davies
(2005).
Water molecules in the antibody-antigen interface of the structure of the Fab HyHEL-5-lysozyme complex at 1.7 A resolution: comparison with results from isothermal titration calorimetry.
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Acta Crystallogr D Biol Crystallogr,
61,
628-633.
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PDB code:
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C.N.Patel,
S.M.Noble,
G.T.Weatherly,
A.Tripathy,
D.J.Winzor,
and
G.J.Pielak
(2002).
Effects of molecular crowding by saccharides on alpha-chymotrypsin dimerization.
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Protein Sci,
11,
997.
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M.C.Vaney,
I.Broutin,
P.Retailleau,
A.Douangamath,
S.Lafont,
C.Hamiaux,
T.Prangé,
A.Ducruix,
and
M.Riès-Kautt
(2001).
Structural effects of monovalent anions on polymorphic lysozyme crystals.
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Acta Crystallogr D Biol Crystallogr,
57,
929-940.
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PDB codes:
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D.Fleury,
R.S.Daniels,
J.J.Skehel,
M.Knossow,
and
T.Bizebard
(2000).
Structural evidence for recognition of a single epitope by two distinct antibodies.
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Proteins,
40,
572-578.
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PDB code:
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D.W.Ritchie,
and
G.J.Kemp
(2000).
Protein docking using spherical polar Fourier correlations.
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Proteins,
39,
178-194.
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Y.A.Muller,
Y.Chen,
H.W.Christinger,
B.Li,
B.C.Cunningham,
H.B.Lowman,
and
A.M.de Vos
(1998).
VEGF and the Fab fragment of a humanized neutralizing antibody: crystal structure of the complex at 2.4 A resolution and mutational analysis of the interface.
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Structure,
6,
1153-1167.
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PDB code:
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K.A.Xavier,
K.A.Shick,
S.J.Smith-Gil,
and
R.C.Willson
(1997).
Involvement of water molecules in the association of monoclonal antibody HyHEL-5 with bobwhite quail lysozyme.
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Biophys J,
73,
2116-2125.
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T.Keitel,
A.Kramer,
H.Wessner,
C.Scholz,
J.Schneider-Mergener,
and
W.Höhne
(1997).
Crystallographic analysis of anti-p24 (HIV-1) monoclonal antibody cross-reactivity and polyspecificity.
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Cell,
91,
811-820.
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PDB codes:
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The most recent references are shown first.
Citation data come partly from CiteXplore and partly
from an automated harvesting procedure. Note that this is likely to be
only a partial list as not all journals are covered by
either method. However, we are continually building up the citation data
so more and more references will be included with time.
Where a reference describes a PDB structure, the PDB
code is
shown on the right.
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Links
