X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1DZRPDB ENTRY 1DZR

Crystallization

Crystal Properties
Matthews coefficientSolvent content
3.0459.24

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.833α = 90
b = 57.833β = 90
c = 161.62γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100 MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODE

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
12.5341990.097.37.39710
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)
12.532.67990.421.86.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1DZR2.5440.39916548599.40.2130.210.278RANDOM26.96
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]
0.150.15-0.29
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.258
r_dihedral_angle_4_deg19.123
r_dihedral_angle_3_deg16.974
r_dihedral_angle_1_deg7.16
r_scangle_it2.394
r_scbond_it1.488
r_angle_refined_deg1.357
r_mcangle_it0.979
r_mcbond_it0.603
r_nbtor_refined0.301
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.258
r_dihedral_angle_4_deg19.123
r_dihedral_angle_3_deg16.974
r_dihedral_angle_1_deg7.16
r_scangle_it2.394
r_scbond_it1.488
r_angle_refined_deg1.357
r_mcangle_it0.979
r_mcbond_it0.603
r_nbtor_refined0.301
r_symmetry_hbond_refined0.301
r_symmetry_vdw_refined0.225
r_nbd_refined0.22
r_xyhbond_nbd_refined0.194
r_chiral_restr0.085
r_bond_refined_d0.014
r_gen_planes_refined0.004
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
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 Atoms1490
Nucleic Acid Atoms
Solvent Atoms87
Heterogen Atoms10

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling