X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.2
Details CRYSTALS WERE GROWN AT 4C IN 10-16% PEG 1000, 100MM NAK-PHOSPHATE PH 6.2, 500MM NACL, 4MM TCEP. THEY WERE SUBSEQUENTLY SOAKED IN THE PRESENCE OF THE COMPOUND.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 172.32 α = 90
b = 172.32 β = 90
c = 98.82 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 -- DIAMOND I03

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
3.01 82.39 96.2 0.05 -- -- 2.93 -- 20836 -- -- --
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)
3.01 3.17 96.6 0.39 -- 1.97 2.94 --

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
OTHER 3.011 82.393 -- -- -- 20826 1053 96.212 -- 0.169 0.1665 0.2244 --
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 3.011 3.089 -- 70 1464 0.257 0.252 -- 96.055
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 90.452
Anisotropic B[1][1] -1.939
Anisotropic B[1][2] -1.939
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.939
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 6.289
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 15.044
r_scbond_it 16.305
r_mcangle_it 11.873
r_mcbond_it 8.505
r_nbd_refined 0.252
r_gen_planes_refined 0.008
r_chiral_restr 0.105
r_dihedral_angle_4_deg 19.061
r_dihedral_angle_3_deg 15.742
r_dihedral_angle_2_deg 35.777
r_dihedral_angle_1_deg 5.889
r_angle_refined_deg 1.556
r_bond_refined_d 0.011
r_nbtor_refined 0.345
r_xyhbond_nbd_refined 0.179
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4550
Nucleic Acid Atoms 0
Heterogen Atoms 33
Solvent Atoms 14

Software

Computing
Computing Package Purpose
PHENIX Structure Solution
REFMAC 5.7.0029 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.7.0029 refinement
PHENIX model building