X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1X191x19 modified with ccp4 chainsaw

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.5290EMERALD CRYO B-4: 100MM MES PH 6.0, 5% PEG 1000, 10% GLYCEROL, 30% PEG 600, PH 7.5, VAPOR DIFFUSION, TEMPERATURE 298K, pH 7.50, VAPOR DIFFUSION, SITTING DROP, temperature 290K
Crystal Properties
Matthews coefficientSolvent content
2.0640.37

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 44.94α = 107.11
b = 49.08β = 91.19
c = 62.11γ = 107.81
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDSATURN 9442008-09-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007 HF

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
12.15093.70.0410.04125.73.742626126261-322.93
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)
12.12.1583.20.1370.1379.93.61736

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 REPLACEMENTTHROUGHOUT1x19 modified with ccp4 chainsaw2.1502626126261131593.80.1520.1520.150.204RANDOM14.88
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]
0.490.36-0.4-0.150.18-0.03
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.452
r_dihedral_angle_4_deg16.651
r_dihedral_angle_3_deg13.351
r_dihedral_angle_1_deg6.721
r_scangle_it4.29
r_scbond_it2.737
r_mcangle_it1.69
r_angle_refined_deg1.65
r_angle_other_deg0.979
r_mcbond_it0.96
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.452
r_dihedral_angle_4_deg16.651
r_dihedral_angle_3_deg13.351
r_dihedral_angle_1_deg6.721
r_scangle_it4.29
r_scbond_it2.737
r_mcangle_it1.69
r_angle_refined_deg1.65
r_angle_other_deg0.979
r_mcbond_it0.96
r_mcbond_other0.275
r_chiral_restr0.106
r_bond_refined_d0.02
r_gen_planes_refined0.009
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3703
Nucleic Acid Atoms
Solvent Atoms365
Heterogen Atoms37

Software

Software
Software NamePurpose
StructureStudiodata collection
PHASERphasing
REFMACrefinement
XDSdata reduction
XSCALEdata scaling