X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 295.0
Details 14-23% PEG 3340, 350mM sodium acetate in 50 mM imidazole, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.55 α = 90
b = 79.27 β = 105.48
c = 54.92 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
IMAGE PLATE RIGAKU RAXIS IV++ -- 2013-03-06
Diffraction Radiation
Monochromator Protocol
Varimax focusing mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418 -- --

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
2.27 20 97.1 -- -- -- -- 20228 20228 -- 0.0 --

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 2.27 19.83 -- 0.0 -- 19695 1011 94.27 -- 0.2151 0.212 0.2694 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 2.271 2.33 -- 61 1287 0.275 0.391 -- 88.34
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.3099
Anisotropic B[1][1] 0.81
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.44
Anisotropic B[2][2] -0.49
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.38
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.008
r_bond_other_d 0.001
r_dihedral_angle_4_deg 16.637
r_mcbond_other 1.745
r_dihedral_angle_3_deg 16.947
r_bond_refined_d 0.012
r_chiral_restr 0.092
r_dihedral_angle_1_deg 5.83
r_dihedral_angle_2_deg 37.116
r_mcangle_it 2.731
r_angle_other_deg 1.148
r_gen_planes_other 0.001
r_mcbond_it 1.756
r_angle_refined_deg 1.651
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2543
Nucleic Acid Atoms 633
Heterogen Atoms 2
Solvent Atoms 72

Software

Software
Software Name Purpose
REFMAC refinement version: 5.7.0032
PDB_EXTRACT data extraction version: 3.11
StructureStudio data collection
HKL-2000 data reduction
HKL-2000 data scaling
MOLREP phasing