X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 293.0
Details 1.6M AmSO4, 0.1M Na Citrate pH 5.6, 5mM CdCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.75 α = 90
b = 59.7 β = 90
c = 81.82 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD K-B pair of biomorph mirrors 2007-02-14
Diffraction Radiation
Monochromator Protocol
double crystal monochromator and K-B pair of biomorph mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 1 APS 23-ID-B

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
1.95 48.25 99.4 0.1 0.112 -- 4.5 23203 21811 -- -- 22.38
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)
1.95 2.06 99.4 0.497 0.479 2.9 4.6 3184

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 1.95 40.91 -- -- 21811 20602 1117 98.83 -- 0.21278 0.21084 0.24882 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 1.95 2.001 -- 92 1517 0.27 0.305 -- 99.63
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.036
Anisotropic B[1][1] -0.83
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.24
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.41
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.472
r_scbond_it 2.897
r_mcangle_it 2.124
r_mcbond_other 0.277
r_mcbond_it 1.189
r_gen_planes_other 0.001
r_gen_planes_refined 0.008
r_chiral_restr 0.112
r_dihedral_angle_4_deg 11.879
r_dihedral_angle_3_deg 16.86
r_dihedral_angle_2_deg 35.231
r_dihedral_angle_1_deg 6.585
r_angle_other_deg 1.062
r_angle_refined_deg 2.174
r_bond_other_d 0.001
r_bond_refined_d 0.022
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2168
Nucleic Acid Atoms 0
Heterogen Atoms 61
Solvent Atoms 57

Software

Computing
Computing Package Purpose
BLU-ICE Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
AMoRE Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0109 refinement
AMoRE model building
BLU-ICE data collection