X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.2
Details PEG3350, HEPES PH7.2, AMMONIUM ACETATE, VAPOR DIFFUSION HANGING DROP, ROOM TEMPERATURE, pH 7.20

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.04 α = 90
b = 71.76 β = 90
c = 71.76 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
IMAGE PLATE RIGAKU MIRRORS 2003-07-31
Diffraction Radiation
Monochromator Protocol
MSC OSMIC BLUE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH3R -- -- --

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
2 30 88.6 0.05 -- -- 2.29 -- 18445 -- -- --
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)
2.0 2.07 65.3 0.42 -- 1.6 1.14 --

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 2.1 29.75 -- -- -- 15354 812 100.0 -- 0.235 0.233 0.288 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 2.1 2.15 -- 60 1119 0.282 0.363 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.32
Anisotropic B[1][1] -0.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.08
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.1
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.176
r_scbond_it 3.516
r_mcangle_it 2.329
r_mcbond_it 1.392
r_nbd_refined 0.267
r_gen_planes_refined 0.011
r_chiral_restr 0.168
r_dihedral_angle_4_deg 19.864
r_dihedral_angle_3_deg 20.26
r_dihedral_angle_1_deg 7.831
r_angle_refined_deg 2.454
r_bond_refined_d 0.028
r_xyhbond_nbd_refined 0.181
r_symmetry_vdw_refined 0.303
r_symmetry_hbond_refined 0.215
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2321
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 60

Software

Computing
Computing Package Purpose
CRYSTALCLEAR Data Reduction (intensity integration)
D*TREK Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.1.09 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.09 refinement
MOLREP model building