X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 100 MM SODIUM CITRATE, PH=5, 14% PEG 8000, 10% GLUCOSE, 5% MPD, 4MG/ML PROTEIN

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.8 α = 90
b = 98.04 β = 90
c = 240.32 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 180
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC MIRRORS 2007-05-10
Diffraction Radiation
Monochromator Protocol
SI (111) CHANNEL-CUT CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-3 -- ESRF ID14-3

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 49.02 91.2 0.08 -- -- 6.6 -- 38236 -- 0.0 26.586
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)
2.0 2.11 53.9 0.64 -- 2.0 3.0 --

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 2.0 49.02 -- -- -- 36271 1910 91.12 -- 0.21485 0.21187 0.27208 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 2.0 2.052 -- 51 1073 0.305 0.376 -- 36.74
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 36.487
Anisotropic B[1][1] 0.09
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.05
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.472
r_scbond_it 2.228
r_mcangle_it 2.185
r_mcbond_it 1.235
r_gen_planes_refined 0.006
r_chiral_restr 0.081
r_dihedral_angle_4_deg 17.845
r_dihedral_angle_3_deg 16.398
r_dihedral_angle_2_deg 34.433
r_dihedral_angle_1_deg 5.437
r_angle_refined_deg 1.217
r_bond_refined_d 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4239
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 362

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHENIX Structure Solution
REFMAC 5.5.0102 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0102 refinement
PHENIX model building