X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1K4F 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17293Ammonium Sulfate 2.2 M, HEPES, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 7.00
Crystal Properties
Matthews coefficientSolvent content
2.4449.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 47.11α = 90
b = 125.4β = 99.8
c = 92.36γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mm2006-02-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE BM30AESRFBM30A

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
12.746.4799.20.122113.32882445.63
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)
12.72.8599.30.4523.13.2

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 REPLACEMENTTHROUGHOUT1K4F2.746.4727307143898.80.2130.210.267RANDOM32.43
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]
3.254.47-4.252.53
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.216
r_dihedral_angle_3_deg18.15
r_dihedral_angle_4_deg12.439
r_dihedral_angle_1_deg5.635
r_mcangle_it2.563
r_scangle_it2.152
r_mcbond_it1.609
r_scbond_it1.469
r_angle_refined_deg1.075
r_nbtor_refined0.298
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg41.216
r_dihedral_angle_3_deg18.15
r_dihedral_angle_4_deg12.439
r_dihedral_angle_1_deg5.635
r_mcangle_it2.563
r_scangle_it2.152
r_mcbond_it1.609
r_scbond_it1.469
r_angle_refined_deg1.075
r_nbtor_refined0.298
r_nbd_refined0.206
r_symmetry_vdw_refined0.184
r_symmetry_hbond_refined0.171
r_xyhbond_nbd_refined0.142
r_chiral_restr0.073
r_bond_refined_d0.007
r_gen_planes_refined0.003
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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7475
Nucleic Acid Atoms
Solvent Atoms93
Heterogen Atoms54

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
AMoREphasing