2HTX

Crystal Structure Analysis of Hen Egg White Lysozyme Crosslinked by Polymerized Glutaraldehyde in Acidic Environment


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
otherIn-House Coordinates

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.82910.1M Sodium Acetate, 7% NaCl, 25% Ethylene glycol, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
238.62

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 78.856α = 90
b = 78.856β = 90
c = 36.954γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mmmirrors2005-09-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-30.931ESRFID14-3

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.5655.7397.70.0360.03647.27.51715717157-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.561.5987.10.3670.3672.343.7

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONFOURIER SYNTHESISTHROUGHOUTIn-House Coordinates1.5655.73171571591284297.660.129370.12660.1824RANDOM30.913
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-0.19-0.190.37
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.618
r_sphericity_free22.949
r_dihedral_angle_4_deg17.14
r_scangle_it16.243
r_scbond_it14.344
r_sphericity_bonded14.033
r_dihedral_angle_3_deg13.32
r_rigid_bond_restr9.29
r_mcangle_it8.31
r_mcbond_it6.628
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.618
r_sphericity_free22.949
r_dihedral_angle_4_deg17.14
r_scangle_it16.243
r_scbond_it14.344
r_sphericity_bonded14.033
r_dihedral_angle_3_deg13.32
r_rigid_bond_restr9.29
r_mcangle_it8.31
r_mcbond_it6.628
r_dihedral_angle_1_deg5.756
r_angle_refined_deg1.445
r_nbtor_refined0.307
r_symmetry_vdw_refined0.289
r_nbd_refined0.226
r_xyhbond_nbd_refined0.212
r_symmetry_hbond_refined0.162
r_chiral_restr0.104
r_bond_refined_d0.013
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1097
Nucleic Acid Atoms
Solvent Atoms123
Heterogen Atoms40

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
REFMACphasing