X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP293CaCl2, PEG400, Hepes
Crystal Properties
Matthews coefficientSolvent content
4.2871.28

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 121.591α = 90
b = 169.385β = 90
c = 174.478γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42013-05-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-10.976ESRFID23-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.3517099.218.16.4150050
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.352.39

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE3PCV2.35121.534149953734099.9570.2090.20810.2297random57.935
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]
-0.673-0.1760.849
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.199
r_dihedral_angle_3_deg19.445
r_dihedral_angle_4_deg13.811
r_lrange_it8.15
r_lrange_other8.141
r_scangle_it7.062
r_scangle_other7.062
r_dihedral_angle_1_deg5.412
r_scbond_it4.898
r_scbond_other4.898
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.199
r_dihedral_angle_3_deg19.445
r_dihedral_angle_4_deg13.811
r_lrange_it8.15
r_lrange_other8.141
r_scangle_it7.062
r_scangle_other7.062
r_dihedral_angle_1_deg5.412
r_scbond_it4.898
r_scbond_other4.898
r_mcangle_it3.829
r_mcangle_other3.828
r_mcbond_it2.885
r_mcbond_other2.883
r_angle_refined_deg2.244
r_angle_other_deg2.018
r_nbd_other0.464
r_symmetry_nbd_refined0.369
r_nbd_refined0.223
r_symmetry_xyhbond_nbd_other0.215
r_nbtor_refined0.206
r_symmetry_nbd_other0.18
r_symmetry_xyhbond_nbd_refined0.177
r_xyhbond_nbd_refined0.153
r_chiral_restr0.139
r_symmetry_nbtor_other0.093
r_ncsr_local_group_490.089
r_ncsr_local_group_280.085
r_ncsr_local_group_320.085
r_ncsr_local_group_610.084
r_ncsr_local_group_650.083
r_ncsr_local_group_50.082
r_ncsr_local_group_110.082
r_ncsr_local_group_460.079
r_ncsr_local_group_220.077
r_ncsr_local_group_350.077
r_ncsr_local_group_20.076
r_ncsr_local_group_80.076
r_ncsr_local_group_500.076
r_ncsr_local_group_380.075
r_ncsr_local_group_190.073
r_ncsr_local_group_250.073
r_ncsr_local_group_340.073
r_ncsr_local_group_520.073
r_ncsr_local_group_530.073
r_ncsr_local_group_160.072
r_ncsr_local_group_560.072
r_ncsr_local_group_580.071
r_ncsr_local_group_660.071
r_ncsr_local_group_210.069
r_ncsr_local_group_400.069
r_ncsr_local_group_550.069
r_ncsr_local_group_150.068
r_ncsr_local_group_640.068
r_ncsr_local_group_370.067
r_ncsr_local_group_390.067
r_ncsr_local_group_470.067
r_ncsr_local_group_70.066
r_ncsr_local_group_430.066
r_ncsr_local_group_450.066
r_ncsr_local_group_620.065
r_ncsr_local_group_290.064
r_ncsr_local_group_120.063
r_ncsr_local_group_130.063
r_ncsr_local_group_180.063
r_ncsr_local_group_10.062
r_ncsr_local_group_100.062
r_ncsr_local_group_310.062
r_ncsr_local_group_600.062
r_ncsr_local_group_40.06
r_ncsr_local_group_230.06
r_ncsr_local_group_420.06
r_ncsr_local_group_570.056
r_ncsr_local_group_260.055
r_ncsr_local_group_90.052
r_ncsr_local_group_60.051
r_ncsr_local_group_510.049
r_ncsr_local_group_140.043
r_xyhbond_nbd_other0.042
r_ncsr_local_group_30.041
r_ncsr_local_group_170.041
r_ncsr_local_group_240.041
r_ncsr_local_group_480.041
r_ncsr_local_group_540.041
r_ncsr_local_group_410.039
r_ncsr_local_group_360.037
r_ncsr_local_group_440.036
r_ncsr_local_group_330.035
r_ncsr_local_group_590.033
r_ncsr_local_group_200.03
r_ncsr_local_group_300.028
r_ncsr_local_group_630.028
r_bond_refined_d0.024
r_bond_other_d0.016
r_gen_planes_refined0.016
r_gen_planes_other0.013
r_ncsr_local_group_270.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms14126
Nucleic Acid Atoms
Solvent Atoms97
Heterogen Atoms928

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing