X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details 100mM HEPES, 2M ammonium sulfate, 2%(v/v) PEG400, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 96.38 α = 90
b = 170.05 β = 102.87
c = 96.33 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2012-03-01
Diffraction Radiation
Monochromator Protocol
Si111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.9795 SSRF BL17U

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.4 50 95.8 -- -- -- -- 117571 112586 0.0 0.0 --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.4 2.49 100.0 -- -- -- -- --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.4 30.0 -- 4.0 112586 107042 5664 95.72 0.269 0.24224 0.23994 0.28633 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.4 2.462 -- 432 7896 0.291 0.372 -- 96.49
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 51.504
Anisotropic B[1][1] -3.44
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.61
Anisotropic B[2][2] 4.84
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.67
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.207
r_bond_refined_d 0.011
r_scbond_it 1.604
r_gen_planes_refined 0.004
r_dihedral_angle_1_deg 6.344
r_dihedral_angle_3_deg 19.011
r_mcbond_it 0.693
r_symmetry_hbond_refined 0.164
r_dihedral_angle_4_deg 14.7
r_scangle_it 2.597
r_dihedral_angle_2_deg 34.534
r_nbtor_refined 0.303
r_xyhbond_nbd_refined 0.171
r_chiral_restr 0.083
r_mcangle_it 1.14
r_symmetry_vdw_refined 0.253
r_angle_refined_deg 1.282
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 18649
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 32

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
PHASES phasing
REFMAC refinement version: 5.2.0019
HKL-2000 data reduction
HKL-2000 data scaling