X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5ANNPDB ENTRY 5ANN

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.5PROTEIN WAS CRYSTALLIZED FROM 1.4M SODIUM CITRATE TRIBASIC DIHYDRATE, 0.1M HEPES PH 7.5, THEN SOAKED IN 6% W/V SUCROSE
Crystal Properties
Matthews coefficientSolvent content
2.0740.67

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 74.734α = 90
b = 205.219β = 90
c = 146.071γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6MKB MIRRORS2013-11-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALBA BEAMLINE XALOCALBAXALOC

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
12.01119990.1188.26.814803
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)
12.012.0498.10.5526.9

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 5ANN2.01119140659732698.730.167160.166230.18473RANDOM31.718
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]
2.6-3.681.07
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.042
r_dihedral_angle_4_deg17.834
r_dihedral_angle_3_deg10.455
r_dihedral_angle_1_deg6.857
r_long_range_B_refined5.927
r_long_range_B_other5.416
r_scangle_other3.536
r_scbond_it2.206
r_scbond_other2.206
r_mcangle_it1.923
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.042
r_dihedral_angle_4_deg17.834
r_dihedral_angle_3_deg10.455
r_dihedral_angle_1_deg6.857
r_long_range_B_refined5.927
r_long_range_B_other5.416
r_scangle_other3.536
r_scbond_it2.206
r_scbond_other2.206
r_mcangle_it1.923
r_mcangle_other1.923
r_angle_refined_deg1.506
r_mcbond_it1.279
r_mcbond_other1.279
r_angle_other_deg1.181
r_chiral_restr0.117
r_bond_refined_d0.008
r_gen_planes_refined0.006
r_bond_other_d0.003
r_gen_planes_other0.003
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms9588
Nucleic Acid Atoms
Solvent Atoms1511
Heterogen Atoms913

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
MOLREPphasing