X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.8
Temperature 298.0
Details 0.1-M hepes, 10% isopropanol, 19% peg 4000, pH 7.80, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.13 α = 90
b = 63.87 β = 91.87
c = 39.33 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate osmic confocal flux 2001-09-26
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 -- -- --

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 37.53 90.8 -- 0.112 -- 4.31 13430 13430 -- -3.0 --
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 1.97 94.0 -- 0.24 2.62 1.9 1380

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
FOURIER SYNTHESIS 1.9 48.8 -- 0.0 -- 12712 672 90.82 -- 0.20637 0.20435 0.24454 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 2.0 1933 103 1934 0.186 0.281 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.722
Anisotropic B[1][1] 0.29
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.01
Anisotropic B[2][2] -2.11
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.82
RMS Deviations
Key Refinement Restraint Deviation
r_nbtor_other 0.106
r_nbd_other 0.253
r_nbd_refined 0.22
r_gen_planes_other 0.005
r_gen_planes_refined 0.007
r_chiral_restr 0.144
r_dihedral_angle_1_deg 7.537
r_angle_other_deg 1.057
r_angle_refined_deg 2.322
r_bond_other_d 0.001
r_bond_refined_d 0.014
r_xyhbond_nbd_refined 0.265
r_symmetry_vdw_refined 0.213
r_symmetry_vdw_other 0.268
r_symmetry_hbond_refined 0.281
r_mcbond_it 5.1
r_mcangle_it 7.033
r_scbond_it 6.414
r_scangle_it 8.256
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1268
Nucleic Acid Atoms 0
Heterogen Atoms 27
Solvent Atoms 45

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
CNS model building
SCALEPACK data reduction
DENZO data collection