X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 295.0
Details 0.4M SODIUM CITRATE, 50mM HEPES PH 7.5, 7.5mM DTT, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 99.33 α = 90
b = 72.91 β = 108.6
c = 79.85 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR MARMOSAIC 300 mm CCD -- 2007-12-02
Diffraction Radiation
Monochromator Protocol
double mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 0.94937 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
1.9 75.6 99.52 0.051 0.051 -- 3.7 42674 42469 2.0 2.0 --
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)
1.9 2.0 99.6 0.299 0.299 2.5 -- --

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 1.9 75.59 -- -- 42469 40326 2143 99.52 0.1958 0.1976 0.19578 0.23202 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 1.9 1.949 -- 171 2965 0.248 0.3 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.056
Anisotropic B[1][1] 1.77
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.55
Anisotropic B[2][2] -0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.38
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.535
r_scbond_it 3.004
r_mcangle_it 2.141
r_mcbond_other 0.0
r_mcbond_it 1.243
r_nbd_refined 0.213
r_gen_planes_other 0.005
r_gen_planes_refined 0.003
r_chiral_restr 0.073
r_dihedral_angle_4_deg 14.37
r_dihedral_angle_3_deg 13.052
r_dihedral_angle_2_deg 31.579
r_dihedral_angle_1_deg 4.949
r_angle_other_deg 4.118
r_angle_refined_deg 1.144
r_bond_other_d 0.0
r_bond_refined_d 0.009
r_nbd_other 0.255
r_nbtor_refined 0.187
r_nbtor_other 0.11
r_xyhbond_nbd_refined 0.138
r_symmetry_vdw_refined 0.112
r_symmetry_vdw_other 0.232
r_symmetry_hbond_refined 0.168
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3419
Nucleic Acid Atoms 0
Heterogen Atoms 11
Solvent Atoms 166

Software

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