X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1EZXPDB ENTRY 1EZX

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION62950.1M MES/NaOH, 30% PEG 400, 35% glycerol, pH 6, VAPOR DIFFUSION, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
2.141.33

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 37.23α = 90
b = 121.88β = 113.88
c = 43.22γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152009-07-04MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I020.97950DiamondI02

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
11.534.0498.90.0680.06810.43.5555165551618.9
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)
1.51.5898.80.4960.4962.43.58057

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 1EZX1.532.7952634282298.790.162350.159770.21118RANDOM21.412
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]
0.050.02-0.040.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.773
r_dihedral_angle_4_deg20.797
r_dihedral_angle_3_deg13.445
r_sphericity_free12.395
r_sphericity_bonded7.175
r_scangle_it6.925
r_dihedral_angle_1_deg6.595
r_scbond_it4.828
r_mcangle_it3.487
r_rigid_bond_restr2.806
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.773
r_dihedral_angle_4_deg20.797
r_dihedral_angle_3_deg13.445
r_sphericity_free12.395
r_sphericity_bonded7.175
r_scangle_it6.925
r_dihedral_angle_1_deg6.595
r_scbond_it4.828
r_mcangle_it3.487
r_rigid_bond_restr2.806
r_mcbond_it2.377
r_angle_refined_deg2.083
r_chiral_restr0.151
r_bond_refined_d0.026
r_gen_planes_refined0.012
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2882
Nucleic Acid Atoms
Solvent Atoms216
Heterogen Atoms

Software

Software
Software NamePurpose
DNAdata collection
PHASERphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling