X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1F41 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION4.629815% PEG 4000, 0.05M NaAcetate, 0.1M AmmoniumAcetate , pH 4.6, VAPOR DIFFUSION, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.2445.08

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 60.586α = 90
b = 75.907β = 93.1
c = 107.267γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152008-03-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID290.9729ESRFID29

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
12.4107.299.60.06914.343805538055
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)
2.42.5399.80.4862.94.15558

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 REPLACEMENTTHROUGHOUT1F412.4107.236139190099.540.205170.201910.26743RANDOM50.332
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]
-0.36-2.4-2.372.47
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.842
r_dihedral_angle_4_deg22.628
r_dihedral_angle_3_deg19.527
r_dihedral_angle_1_deg7.425
r_mcangle_it3.794
r_scangle_it3.206
r_mcbond_it2.287
r_scbond_it2.254
r_angle_refined_deg2.215
r_symmetry_hbond_refined0.472
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.842
r_dihedral_angle_4_deg22.628
r_dihedral_angle_3_deg19.527
r_dihedral_angle_1_deg7.425
r_mcangle_it3.794
r_scangle_it3.206
r_mcbond_it2.287
r_scbond_it2.254
r_angle_refined_deg2.215
r_symmetry_hbond_refined0.472
r_symmetry_vdw_refined0.35
r_nbtor_refined0.333
r_nbd_refined0.267
r_xyhbond_nbd_refined0.225
r_chiral_restr0.138
r_bond_refined_d0.027
r_gen_planes_refined0.01
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 Atoms7152
Nucleic Acid Atoms
Solvent Atoms131
Heterogen Atoms20

Software

Software
Software NamePurpose
REFMACrefinement
ADSCdata collection
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing