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PDBsum entry 2vb1
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References listed in PDB file
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Key reference
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Title
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Triclinic lysozyme at 0.65 a resolution.
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Authors
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J.Wang,
M.Dauter,
R.Alkire,
A.Joachimiak,
Z.Dauter.
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Ref.
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Acta Crystallogr D Biol Crystallogr, 2007,
63,
1254-1268.
[DOI no: ]
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PubMed id
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Abstract
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The crystal structure of triclinic hen egg-white lysozyme (HEWL) has been
refined against diffraction data extending to 0.65 A resolution measured at 100
K using synchrotron radiation. Refinement with anisotropic displacement
parameters and with the removal of stereochemical restraints for the well
ordered parts of the structure converged with a conventional R factor of 8.39%
and an R(free) of 9.52%. The use of full-matrix refinement provided an estimate
of the variances in the derived parameters. In addition to the 129-residue
protein, a total of 170 water molecules, nine nitrate ions, one acetate ion and
three ethylene glycol molecules were located in the electron-density map. Eight
sections of the main chain and many side chains were modeled with alternate
conformations. The occupancies of the water sites were refined and this step is
meaningful when assessed by use of the free R factor. A detailed description and
comparison of the structure are made with reference to the previously reported
triclinic HEWL structures refined at 0.925 A (at the low temperature of 120 K)
and at 0.95 A resolution (at room temperature).
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Figure 5.
Figure 5 (a) Distribution of the N-C^  -C
angles for the current model and (b) for 3lzt . (c) Modeling the
peptide flip around Asn103 in 3lzt and (d) in the current model.
Blue and red colours in (a) correspond to residues in single and
double conformations, respectively.
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Figure 9.
Figure 9 Distributions of peptide-bond lengths for well ordered
parts of the model. Red columns represent restrained refinement
and green columns unrestrained refinement.
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The above figures are
reprinted
by permission from the IUCr:
Acta Crystallogr D Biol Crystallogr
(2007,
63,
1254-1268)
copyright 2007.
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