1EB6

Deuterolysin from Aspergillus oryzae


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.51.8M NA,K PHOSPHATE, 0.1M HEPES PH 7.5
Crystal Properties
Matthews coefficientSolvent content
239

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 38.43α = 90
b = 34.764β = 106.03
c = 60.276γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-2ESRFID14-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
113099.60.052233.582199
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
111.0299.80.2453.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONDIRECT METHODSTHROUGHOUT157.7378791243999.60.1040.126RANDOM
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it5.038
r_dihedral_angle_3_deg4.152
r_scbond_it3.588
r_mcangle_it2.505
r_angle_other_deg2.399
r_mcbond_it1.663
r_nbtor_other0.978
r_nbd_refined0.523
r_nbd_other0.33
r_symmetry_hbond_refined0.227
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it5.038
r_dihedral_angle_3_deg4.152
r_scbond_it3.588
r_mcangle_it2.505
r_angle_other_deg2.399
r_mcbond_it1.663
r_nbtor_other0.978
r_nbd_refined0.523
r_nbd_other0.33
r_symmetry_hbond_refined0.227
r_symmetry_vdw_refined0.188
r_xyhbond_nbd_refined0.184
r_chiral_restr0.146
r_symmetry_vdw_other0.14
r_bond_refined_d0.018
r_gen_planes_refined0.011
r_gen_planes_other0.008
r_bond_other_d0.003
r_angle_refined_deg
r_dihedral_angle_1_deg
r_dihedral_angle_2_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1335
Nucleic Acid Atoms
Solvent Atoms259
Heterogen Atoms13

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
ACORNphasing