X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 289.0
Details 30% PEG 6K, 100mM MES, 5% MPD , pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.99 α = 89.92
b = 84.13 β = 76.01
c = 93.16 γ = 77
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate Mirrors 2005-06-19
Diffraction Radiation
Monochromator Protocol
Osmic Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 1.54 -- --

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
3.11 90.17 94.3 0.096 -- -- 5.7 -- 41323 -- -- 38.3
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)
3.11 3.19 93.7 0.48 -- 1.9 6.3 4092

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 3.11 90.17 -- -- -- 34647 1820 95.68 -- 0.2537 0.25087 0.30649 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 3.11 3.191 -- 123 2392 0.357 0.353 -- 89.79
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 50.26
Anisotropic B[1][1] 2.7
Anisotropic B[1][2] -1.09
Anisotropic B[1][3] -2.03
Anisotropic B[2][2] -1.18
Anisotropic B[2][3] 0.74
Anisotropic B[3][3] -0.05
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.004
r_scangle_it 0.559
r_chiral_restr 0.062
r_dihedral_angle_4_deg 16.114
r_bond_refined_d 0.006
r_scbond_it 0.314
r_dihedral_angle_2_deg 38.765
r_mcbond_it 0.161
r_mcangle_it 0.299
r_dihedral_angle_1_deg 5.399
r_dihedral_angle_3_deg 14.709
r_angle_refined_deg 0.96
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14975
Nucleic Acid Atoms 0
Heterogen Atoms 119
Solvent Atoms 22

Software

Software
Software Name Purpose
MAR345dtb data collection
PHASER phasing
REFMAC refinement version: 5.5.0109
DENZO data reduction
SCALEPACK data scaling