X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2Q1HPDB entry 2Q1H

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.42980.5-0.75M ammonium acetate, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
3.6366.09

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 104.218α = 90
b = 104.218β = 90
c = 144.166γ = 120
Symmetry
Space GroupP 61

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMAR scanner 300 mm plateDouble Crystal Monochromator Si-2202008-04-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID1.0APS22-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.5501000.1157.3308133081352.2
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.52.591000.445.27.33879

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 2Q1H2.549.0129216155099.980.198880.19590.25467RANDOM39.643
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]
0.380.190.38-0.57
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.805
r_dihedral_angle_3_deg19.753
r_dihedral_angle_4_deg17.842
r_dihedral_angle_1_deg5.312
r_rigid_bond_restr4.17
r_scbond_it3.979
r_sphericity_free3.867
r_scangle_it3.507
r_sphericity_bonded2.404
r_mcangle_it1.499
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.805
r_dihedral_angle_3_deg19.753
r_dihedral_angle_4_deg17.842
r_dihedral_angle_1_deg5.312
r_rigid_bond_restr4.17
r_scbond_it3.979
r_sphericity_free3.867
r_scangle_it3.507
r_sphericity_bonded2.404
r_mcangle_it1.499
r_angle_refined_deg1.434
r_mcbond_it0.895
r_nbtor_refined0.314
r_symmetry_vdw_refined0.233
r_nbd_refined0.207
r_xyhbond_nbd_refined0.16
r_symmetry_hbond_refined0.157
r_chiral_restr0.101
r_bond_refined_d0.012
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4213
Nucleic Acid Atoms
Solvent Atoms154
Heterogen Atoms56

Software

Software
Software NamePurpose
SERGUIdata collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling