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_scangle_it 0.559
r_scbond_it 0.314
r_mcangle_it 0.299
r_mcbond_it 0.161
r_gen_planes_refined 0.004
r_chiral_restr 0.062
r_dihedral_angle_4_deg 16.114
r_dihedral_angle_3_deg 14.709
r_dihedral_angle_2_deg 38.765
r_dihedral_angle_1_deg 5.399
r_angle_refined_deg 0.96
r_bond_refined_d 0.006
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

Computing
Computing Package Purpose
MAR345dtb Data Collection
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0109 refinement
PHASER model building
MAR345dtb data collection