X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1W3WPDB ENTRY 1W3W

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
10.1M TRIS PH 7.5, 2M AMMONIUM SULPHATE, 2% PEG 400
Crystal Properties
Matthews coefficientSolvent content
2.6947.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 49.297α = 84.42
b = 59.653β = 83.32
c = 70.788γ = 74.1
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMAR scanner 345 mm plateOSMIC MIRRORS2003-12-31MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007

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
12.5540.90.087.581.826449
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)
12.52.620.90.292.041.4

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 1W3W2.5120225381210900.2090.2060.269RANDOM34.24
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]
1.632.550.43-1.150.53-2.08
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.72
r_dihedral_angle_3_deg18.658
r_dihedral_angle_4_deg16.314
r_dihedral_angle_1_deg5.412
r_scangle_it2.667
r_scbond_it1.665
r_angle_refined_deg1.267
r_mcangle_it1.26
r_mcbond_it0.968
r_nbtor_refined0.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.72
r_dihedral_angle_3_deg18.658
r_dihedral_angle_4_deg16.314
r_dihedral_angle_1_deg5.412
r_scangle_it2.667
r_scbond_it1.665
r_angle_refined_deg1.267
r_mcangle_it1.26
r_mcbond_it0.968
r_nbtor_refined0.3
r_symmetry_vdw_refined0.272
r_nbd_refined0.219
r_xyhbond_nbd_refined0.16
r_symmetry_hbond_refined0.145
r_chiral_restr0.087
r_bond_refined_d0.01
r_gen_planes_refined0.004
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_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5026
Nucleic Acid Atoms
Solvent Atoms27
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing