X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 298.0
Details 1.7 M NaCl and 100 mM Tris-HCl (pH 8.0), VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 122.96 α = 89.95
b = 123.22 β = 89.95
c = 175.45 γ = 90
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR ADSC QUANTUM 315 -- --
Diffraction Radiation
Monochromator Protocol
Double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.9795 SSRL BL9-2

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
1.9 50 89.4 -- -- -- 3.6 -- n/a -- -- --

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 1.9 32.56 -- -- -- 682257 35900 88.36 -- 0.15055 0.14825 0.19442 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 1.899 1.948 -- 2085 41230 0.205 0.307 -- 71.97
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.078
Anisotropic B[1][1] 2.34
Anisotropic B[1][2] -2.83
Anisotropic B[1][3] -10.7
Anisotropic B[2][2] -1.42
Anisotropic B[2][3] 1.9
Anisotropic B[3][3] -0.92
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 6.005
r_scbond_it 4.26
r_mcangle_it 2.275
r_mcbond_it 1.526
r_gen_planes_refined 0.013
r_chiral_restr 0.18
r_dihedral_angle_4_deg 19.275
r_dihedral_angle_3_deg 17.23
r_dihedral_angle_2_deg 39.973
r_dihedral_angle_1_deg 7.178
r_angle_refined_deg 2.595
r_bond_refined_d 0.03
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 61672
Nucleic Acid Atoms 0
Heterogen Atoms 1032
Solvent Atoms 4856

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0109 refinement
ADSC version: Quantum data collection