X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 277.0
Details Sodium formate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 89.66 α = 90
b = 89.66 β = 90
c = 222 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 93
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2003-09-04
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
1.79 76.7 96.9 0.058 -- -- 6.0 46654 46654 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)
1.79 1.836 96.9 0.599 -- 1.3 5.5 3490

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 1.79 76.7 -- -- 46654 46654 2521 97.16 -- 0.194 0.19327 0.20788 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 1.79 1.836 -- 179 3311 0.383 0.378 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 20.466
Anisotropic B[1][1] 0.27
Anisotropic B[1][2] 0.14
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.27
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.41
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 2.987
r_angle_other_deg 0.856
r_bond_refined_d 0.01
r_nbd_refined 0.211
r_chiral_restr 0.105
r_gen_planes_other 0.004
r_scangle_it 3.397
r_gen_planes_refined 0.005
r_nbtor_other 0.085
r_angle_refined_deg 1.369
r_symmetry_hbond_refined 0.134
r_mcbond_it 0.611
r_mcangle_it 1.161
r_bond_other_d 0.002
r_nbd_other 0.224
r_symmetry_vdw_refined 0.113
r_scbond_it 2.253
r_xyhbond_nbd_refined 0.164
r_symmetry_vdw_other 0.277
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.101
Luzzati ESD (R-Free Set) 0.095
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2637
Nucleic Acid Atoms 0
Heterogen Atoms 36
Solvent Atoms 156

Software

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