X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9
Temperature 293.0
Details PEG 8000, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 108.2 α = 90
b = 108.2 β = 90
c = 153.1 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR ADSC QUANTUM 315r -- 2010-01-27
Diffraction Radiation
Monochromator Protocol
double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL7-1 0.979 SSRL BL7-1

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
3.3 30 98.9 0.094 -- -- 5.4 14198 14042 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)
3.3 3.48 99.9 0.353 -- 2.1 5.5 --

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 3.3 29.46 -- -- 14198 13326 698 100.0 0.22838 0.22838 0.22499 0.29572 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 3.3 3.385 -- 47 970 0.287 0.388 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 61.897
Anisotropic B[1][1] -1.47
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.47
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.93
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.631
r_scbond_it 0.966
r_mcangle_it 1.195
r_mcbond_it 0.665
r_symmetry_hbond_refined 0.241
r_bond_refined_d 0.011
r_angle_refined_deg 1.438
r_dihedral_angle_1_deg 7.089
r_dihedral_angle_2_deg 41.856
r_dihedral_angle_3_deg 21.826
r_dihedral_angle_4_deg 18.559
r_chiral_restr 0.102
r_gen_planes_refined 0.004
r_nbd_refined 0.231
r_nbtor_refined 0.315
r_xyhbond_nbd_refined 0.164
r_symmetry_vdw_refined 0.214
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4336
Nucleic Acid Atoms 0
Heterogen Atoms 56
Solvent Atoms 0

Software

Computing
Computing Package Purpose
Blu-Ice Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
Refmac Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
Refmac model building
Blu-Ice data collection