X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3TPC 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.5290JCSG+ f4: 0.1M Hepes pH6.5, 20% Jeffamine
Crystal Properties
Matthews coefficientSolvent content
2.1342.16

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 72.84α = 90
b = 72.84β = 90
c = 350.41γ = 90
Symmetry
Space GroupP 43

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2013-10-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-F0.9787APS21-ID-F

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
12.155097.80.095114.99631925.5
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)
12.152.2199.60.4313.65

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 REPLACEMENTTHROUGHOUT3TPC2.1547.1394319188597.790.236850.236310.26393RANDOM30.974
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]
-5.27-5.2710.55
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.803
r_dihedral_angle_4_deg20.618
r_dihedral_angle_3_deg13.671
r_dihedral_angle_1_deg5.656
r_long_range_B_refined3.79
r_long_range_B_other3.703
r_mcangle_it1.736
r_mcangle_other1.736
r_scangle_other1.62
r_angle_refined_deg1.479
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.803
r_dihedral_angle_4_deg20.618
r_dihedral_angle_3_deg13.671
r_dihedral_angle_1_deg5.656
r_long_range_B_refined3.79
r_long_range_B_other3.703
r_mcangle_it1.736
r_mcangle_other1.736
r_scangle_other1.62
r_angle_refined_deg1.479
r_angle_other_deg1.352
r_mcbond_it1.058
r_mcbond_other1.058
r_scbond_it1.014
r_scbond_other1.014
r_chiral_restr0.076
r_bond_refined_d0.013
r_gen_planes_refined0.01
r_bond_other_d0.009
r_gen_planes_other0.007
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 Atoms14442
Nucleic Acid Atoms
Solvent Atoms497
Heterogen Atoms32

Software

Software
Software NamePurpose
REFMACrefinement