X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 298.0
Details pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 50.47 α = 90
b = 58.02 β = 90
c = 93.08 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 RAXIS IV mirrors 2000-02-23
Diffraction Radiation
Monochromator Protocol
yale mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU -- -- --

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 10 98.1 0.059 0.059 -- 2.65 20214 20214 0.0 0.0 23.7
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 2.016 94.3 0.357 0.357 3.1 2.4 1846

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 10.0 0.0 0.0 19081 19081 974 98.41 0.20046 0.20046 0.19716 0.26891 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 2.016 1846 95 1751 0.303 0.389 -- 94.3
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 33.028
Anisotropic B[1][1] 0.84
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.71
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.55
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.354
r_bond_refined_d 0.008
r_angle_refined_deg 1.422
r_dihedral_angle_1_deg 2.778
r_chiral_restr 0.121
r_gen_planes_refined 0.005
r_nbd_refined 0.22
r_xyhbond_nbd_refined 0.112
r_symmetry_vdw_refined 0.341
r_symmetry_hbond_refined 0.286
r_mcbond_it 3.259
r_mcangle_it 5.027
r_scbond_it 3.744
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2021
Nucleic Acid Atoms 0
Heterogen Atoms 66
Solvent Atoms 214

Software

Computing
Computing Package Purpose
R-AXIS Data Reduction (intensity integration)
D*TREK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.19 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.19 refinement
AMoRE model building
d*TREK data reduction
R-AXIS data collection