X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1V9Q 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.82771.3M Sodium, Pottasium Phosphate, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.0640.41

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 32.691α = 90
b = 59.132β = 90
c = 74.188γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS VII2005-07-29MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU1.5418

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
11.655098.80.09240.599.41778121.168
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)
1.651.7196.40.293

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 REPLACEMENTTHROUGHOUT1V9Q1.6526.71685090698.830.205460.20340.24636RANDOM20.433
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_dihedral_angle_2_deg34.4
r_dihedral_angle_4_deg16.889
r_dihedral_angle_3_deg14.203
r_sphericity_bonded7.61
r_dihedral_angle_1_deg4.543
r_scangle_it4.289
r_scbond_it2.684
r_mcangle_it1.637
r_angle_refined_deg1.483
r_mcbond_it0.969
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.4
r_dihedral_angle_4_deg16.889
r_dihedral_angle_3_deg14.203
r_sphericity_bonded7.61
r_dihedral_angle_1_deg4.543
r_scangle_it4.289
r_scbond_it2.684
r_mcangle_it1.637
r_angle_refined_deg1.483
r_mcbond_it0.969
r_nbtor_refined0.311
r_symmetry_vdw_refined0.219
r_nbd_refined0.216
r_symmetry_hbond_refined0.181
r_xyhbond_nbd_refined0.135
r_metal_ion_refined0.102
r_chiral_restr0.089
r_bond_refined_d0.013
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1240
Nucleic Acid Atoms
Solvent Atoms136
Heterogen Atoms46

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing