X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1W50PDB ENTRY 1W50

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
120-22.5% (W/V) PEG 5000 MONOMETHYLETHYL (MME), 200 MM SODIUM CITRATE (PH 6.6) AND 200 MM AMMONIUM IODIDE
Crystal Properties
Matthews coefficientSolvent content
3.0659.49

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 102.971α = 90
b = 102.971β = 90
c = 167.28γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-2ESRFID14-2

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
12.54799.90.072.517850
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)
12.52.561000.4

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 1W502.547.281780596499.80.2280.2240.289RANDOM39.45
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.808
r_dihedral_angle_4_deg16.734
r_dihedral_angle_3_deg16.191
r_dihedral_angle_1_deg8.205
r_angle_refined_deg1.48
r_angle_other_deg0.903
r_symmetry_vdw_other0.222
r_nbd_refined0.217
r_nbd_other0.21
r_nbtor_refined0.191
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.808
r_dihedral_angle_4_deg16.734
r_dihedral_angle_3_deg16.191
r_dihedral_angle_1_deg8.205
r_angle_refined_deg1.48
r_angle_other_deg0.903
r_symmetry_vdw_other0.222
r_nbd_refined0.217
r_nbd_other0.21
r_nbtor_refined0.191
r_symmetry_vdw_refined0.178
r_xyhbond_nbd_refined0.144
r_scangle_it0.095
r_nbtor_other0.09
r_chiral_restr0.088
r_mcangle_it0.076
r_scbond_it0.072
r_symmetry_hbond_refined0.067
r_mcbond_it0.051
r_bond_refined_d0.013
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_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 Atoms2961
Nucleic Acid Atoms
Solvent Atoms88
Heterogen Atoms27

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
C-SEARCHphasing