X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.4295Ammonium Sulfate, Tris-HCl, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
1.832.4

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 35.497α = 90
b = 28.795β = 105.96
c = 63.257γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152005-02-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X29A1.0NSLSX29A

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
11.35091.40.05217.8305372886922
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.31.33370.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1NPF1.39.782898327400146994.540.179540.179540.177310.22012RANDOM20.71
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]
0.3-0.090.32-0.67
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.726
r_dihedral_angle_4_deg15.331
r_dihedral_angle_3_deg13.706
r_sphericity_free8.779
r_scangle_it8.052
r_scbond_it6.347
r_sphericity_bonded6.166
r_dihedral_angle_1_deg4.365
r_rigid_bond_restr3.859
r_mcangle_it3.662
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.726
r_dihedral_angle_4_deg15.331
r_dihedral_angle_3_deg13.706
r_sphericity_free8.779
r_scangle_it8.052
r_scbond_it6.347
r_sphericity_bonded6.166
r_dihedral_angle_1_deg4.365
r_rigid_bond_restr3.859
r_mcangle_it3.662
r_mcbond_it2.851
r_angle_refined_deg1.189
r_nbtor_refined0.306
r_nbd_refined0.204
r_symmetry_vdw_refined0.161
r_xyhbond_nbd_refined0.122
r_symmetry_hbond_refined0.122
r_chiral_restr0.089
r_metal_ion_refined0.079
r_bond_refined_d0.009
r_gen_planes_refined0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1194
Nucleic Acid Atoms
Solvent Atoms137
Heterogen Atoms55

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
MOLREPphasing