X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details 0.1 M PTPC (PROPIONIC ACID, CACODYLATE, BIS-TRIS PROPANE SYSTEM), 15% PEG 1.5K; 10 MG PER ML PROTEIN, pH 7

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 87.35 α = 90
b = 93.57 β = 90
c = 152.42 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M -- 2014-05-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04-1 -- Diamond I04-1

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
2.25 59.09 100.0 0.09 -- -- 6.8 -- 60022 -- 2.0 --
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)
2.25 2.31 100.0 0.72 -- 3.2 7.1 --

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 2.25 59.09 -- -- -- 57023 2935 99.95 -- 0.20895 0.20724 0.24195 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 2.25 2.308 -- 227 4128 0.284 0.327 -- 99.98
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 38.915
Anisotropic B[1][1] -1.08
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 5.17
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.08
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 18.238
r_mcangle_it 4.399
r_gen_planes_refined 0.01
r_bond_refined_d 0.013
r_dihedral_angle_2_deg 37.105
r_chiral_restr 0.093
r_mcbond_other 3.01
r_gen_planes_other 0.009
r_scbond_it 3.4
r_mcbond_it 3.01
r_angle_refined_deg 1.73
r_dihedral_angle_3_deg 14.155
r_angle_other_deg 1.649
r_bond_other_d 0.01
r_dihedral_angle_1_deg 6.32
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9778
Nucleic Acid Atoms 0
Heterogen Atoms 270
Solvent Atoms 325

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0103
XDS data reduction
SCALA data scaling
MOLREP phasing