X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.3
Temperature 295.0
Details 8% Peg 8000, 0.2M ammonium acetate, 0.1M tris-HCl, pH 7.3, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 87.23 α = 90
b = 110.02 β = 90
c = 144.35 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV Osmic Blue Mirrors 2004-05-07
Diffraction Radiation
Monochromator Protocol
OSMIC BLUE MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 1.5418 -- --

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
2.25 19.8 99.9 0.126 -- -- 4.97 166567 33241 0.0 0.0 30.1
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)
2.25 2.37 100.0 0.35 -- 3.9 4.97 --

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 2.25 19.8 0.0 0.0 30722 30722 2519 100.0 -- 0.186 0.18224 0.23132 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 2.25 2.308 2232 162 2232 0.276 0.338 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 31.545
Anisotropic B[1][1] 0.45
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.72
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.17
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.563
r_nbd_other 0.257
r_angle_other_deg 1.562
r_dihedral_angle_1_deg 8.654
r_gen_planes_refined 0.005
r_bond_other_d 0.001
r_nbtor_other 0.085
r_symmetry_hbond_refined 0.264
r_bond_refined_d 0.014
r_scbond_it 3.68
r_mcbond_it 1.613
r_scangle_it 5.405
r_symmetry_vdw_refined 0.237
r_mcangle_it 2.693
r_symmetry_vdw_other 0.253
r_chiral_restr 0.093
r_gen_planes_other 0.002
r_xyhbond_nbd_refined 0.213
r_nbd_refined 0.242
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.316
Luzzati Resolution Cutoff (Low) 4.8
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4112
Nucleic Acid Atoms 0
Heterogen Atoms 23
Solvent Atoms 262

Software

Software
Software Name Purpose
CrystalClear data collection
CrystalClear data reduction
MOLREP phasing
REFMAC refinement version: 5.1.24
CrystalClear data scaling