X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 1.2M AMMONIUM SULPHATE, 4% PEG400, 0.1M HEPES PH7.5, ARGON ATMOSPHERE, 11MG/ML PROTEIN WITH 1MM FE(II), 2.5MM NOG AND 2.5MM PEPTIDE, pH 7.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 86.16 α = 90
b = 86.16 β = 90
c = 146.66 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 -- 2002-05-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX9.6 -- SRS PX9.6

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
2.15 18.17 99.2 0.052 -- -- 6.3 -- 30574 -- -- --
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)
2.15 2.27 96.0 0.331 -- 1.5 3.4 --

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 2.15 18.5 -- -- -- 28171 2340 99.3 -- 0.18 0.178 0.213 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 2.15 2.21 -- 152 1906 0.222 0.257 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.73
Anisotropic B[1][1] -0.27
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.27
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.55
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.218
r_gen_planes_other 0.002
r_gen_planes_refined 0.005
r_chiral_restr 0.086
r_dihedral_angle_3_deg 17.698
r_dihedral_angle_1_deg 4.018
r_angle_other_deg 0.722
r_angle_refined_deg 1.374
r_bond_other_d 0.001
r_bond_refined_d 0.012
r_nbd_other 0.204
r_xyhbond_nbd_refined 0.152
r_xyhbond_nbd_other 0.087
r_symmetry_vdw_refined 0.245
r_symmetry_vdw_other 0.248
r_symmetry_hbond_refined 0.255
r_symmetry_hbond_other 0.052
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2875
Nucleic Acid Atoms 0
Heterogen Atoms 21
Solvent Atoms 194

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.0 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
SOLVE model building