X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4GCP 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.529513% PEG 2000MME, 0.1 M calcium chloride, 0.1 M Tris
Crystal Properties
Matthews coefficientSolvent content
2.8156

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 77.312α = 90
b = 77.312β = 90
c = 114.044γ = 120
Symmetry
Space GroupP 63

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M-F2014-09-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-10.92DiamondI04-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Rpim I (All)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
11.543.4199.80.04414.35.161689
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.51.531005.2124.7

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 REPLACEMENTTHROUGHOUT4GCP1.543.4159653186499.720.157630.15680.18476RANDOM19.891
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]
0.330.170.33-1.08
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.321
r_dihedral_angle_4_deg16.225
r_dihedral_angle_3_deg11.74
r_dihedral_angle_1_deg6.79
r_long_range_B_refined5.591
r_long_range_B_other5.59
r_scangle_other2.528
r_angle_refined_deg2.087
r_scbond_it1.674
r_scbond_other1.673
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.321
r_dihedral_angle_4_deg16.225
r_dihedral_angle_3_deg11.74
r_dihedral_angle_1_deg6.79
r_long_range_B_refined5.591
r_long_range_B_other5.59
r_scangle_other2.528
r_angle_refined_deg2.087
r_scbond_it1.674
r_scbond_other1.673
r_mcangle_it1.268
r_mcangle_other1.268
r_angle_other_deg1.068
r_mcbond_it0.812
r_mcbond_other0.812
r_chiral_restr0.224
r_bond_refined_d0.021
r_gen_planes_refined0.011
r_bond_other_d0.002
r_gen_planes_other0.001
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 Atoms2637
Nucleic Acid Atoms
Solvent Atoms284
Heterogen Atoms39

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing