X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 6.5
Temperature 273.0
Details 2M sodium chloride, 0.1M MES pH 6.5, 0.1M sodium dihydrogen phosphate, 0.1M potassium dihydrogen phosphate, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 273K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 94 α = 90
b = 94 β = 90
c = 160.37 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 2003-05-22
Diffraction Radiation
Monochromator Protocol
Double Crystal Si(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.2 0.9797, 0.9999, 0.9799 ALS 8.2.2

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
2.4 94 100.0 -- 0.072 -- 4.6 -- 28916 -- -- 57.98
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)
2.4 2.46 100.0 -- 0.537 2.3 4.8 2087

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
MAD 2.4 51.17 -- -- -- 27354 1485 99.92 -- 0.1653 0.16381 0.19427 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 2.4 2.462 -- 120 1955 0.274 0.327 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 44.646
Anisotropic B[1][1] 1.56
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.56
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.12
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.016
r_dihedral_angle_4_deg 13.771
r_symmetry_vdw_refined 0.145
r_xyhbond_nbd_refined 0.134
r_dihedral_angle_3_deg 14.025
r_mcangle_it 3.092
r_scangle_it 8.85
r_scbond_it 6.486
r_dihedral_angle_2_deg 36.945
r_nbd_refined 0.198
r_chiral_restr 0.093
r_angle_refined_deg 1.427
r_gen_planes_refined 0.005
r_symmetry_hbond_refined 0.087
r_mcbond_it 2.08
r_dihedral_angle_1_deg 5.828
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2030
Nucleic Acid Atoms 0
Heterogen Atoms 3
Solvent Atoms 279

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 4.2)
SOLVE phasing
autoSHARP phasing
REFMAC refinement version: 5.2.0000
CCP4 data scaling version: (SCALA)