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_scangle_it 5.405
r_scbond_it 3.68
r_mcangle_it 2.693
r_mcbond_it 1.613
r_nbd_refined 0.242
r_gen_planes_other 0.002
r_gen_planes_refined 0.005
r_chiral_restr 0.093
r_dihedral_angle_1_deg 8.654
r_angle_other_deg 1.562
r_angle_refined_deg 1.563
r_bond_other_d 0.001
r_bond_refined_d 0.014
r_nbd_other 0.257
r_nbtor_other 0.085
r_xyhbond_nbd_refined 0.213
r_symmetry_vdw_refined 0.237
r_symmetry_vdw_other 0.253
r_symmetry_hbond_refined 0.264
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

Computing
Computing Package Purpose
CRYSTALCLEAR Data Reduction (intensity integration)
CRYSTALCLEAR Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement
MOLREP model building
CRYSTALCLEAR data reduction
CRYSTALCLEAR data collection