X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1NW1PDB ENTRY 1NW1

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.50.01 M MGCL2, 15% PEG 3350, 0.2M NAF, pH 7.50
Crystal Properties
Matthews coefficientSolvent content
2.6653.42

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 56.18α = 90
b = 122.82β = 90
c = 132.17γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCD2005-04-29MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE A1CHESSA1

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
12.153099.90.1120.3817.950560
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)
12.152.251000.625.7617.9

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 1NW12.15304548050801000.2040.1990.256RANDOM35.96
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]
-1.312.01-0.69
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.366
r_dihedral_angle_4_deg18.464
r_dihedral_angle_3_deg16.103
r_dihedral_angle_1_deg5.583
r_scangle_it3.077
r_scbond_it2.066
r_mcangle_it1.418
r_angle_refined_deg1.371
r_mcbond_it0.885
r_nbtor_refined0.304
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.366
r_dihedral_angle_4_deg18.464
r_dihedral_angle_3_deg16.103
r_dihedral_angle_1_deg5.583
r_scangle_it3.077
r_scbond_it2.066
r_mcangle_it1.418
r_angle_refined_deg1.371
r_mcbond_it0.885
r_nbtor_refined0.304
r_symmetry_vdw_refined0.229
r_nbd_refined0.205
r_xyhbond_nbd_refined0.185
r_symmetry_hbond_refined0.156
r_chiral_restr0.097
r_bond_refined_d0.014
r_gen_planes_refined0.005
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 Atoms5686
Nucleic Acid Atoms
Solvent Atoms417
Heterogen Atoms16

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
PHASERphasing