X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 10
Temperature 277.0
Details ammonium sulfate and lithium sulfate, pH 10.0, VAPOR DIFFUSION, SITTING DROP, temperature 277.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 89.67 α = 90
b = 94.63 β = 90
c = 106.43 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 93
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2004-07-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.1 ALS 8.3.1

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
2.4 70.71 99.15 0.096 -- -- 4.1 34006 34006 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 2.462 99.2 -- -- 0.759 3.7 2591

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 70.71 -- -- 34006 34006 1792 99.15 -- 0.2454 0.24264 0.29805 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 -- 116 2475 0.294 0.329 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 22.28
Anisotropic B[1][1] -3.59
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.87
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 5.46
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 3.999
r_symmetry_vdw_other 0.256
r_gen_planes_other 0.008
r_mcbond_it 0.832
r_xyhbond_nbd_refined 0.176
r_nbd_refined 0.233
r_angle_other_deg 1.055
r_scbond_it 2.491
r_angle_refined_deg 2.04
r_gen_planes_refined 0.009
r_symmetry_vdw_refined 0.411
r_symmetry_hbond_refined 0.235
r_metal_ion_refined 0.162
r_nbd_other 0.233
r_bond_other_d 0.002
r_chiral_restr 0.119
r_nbtor_other 0.096
r_scangle_it 3.714
r_mcangle_it 1.448
r_bond_refined_d 0.025
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.391
Luzzati ESD (R-Free Set) 0.289
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5226
Nucleic Acid Atoms 0
Heterogen Atoms 44
Solvent Atoms 61

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.25
Blu-Ice data collection
ELVES data scaling
EPMR phasing