X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 1.8M LITHIUM SULPHATE, 100MM TRIS/HCL (PH8.5), (5MM FERROUS SULPHATE, 70 MM ACVG, 50MG/ML IPNS), pH 7.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.7 α = 90
b = 71.39 β = 90
c = 100.91 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC TOROIDAL MIRROR 1999-06-17
Diffraction Radiation
Monochromator Protocol
DIAMOND SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
1.15 29.11 96.2 0.061 -- -- 3.3 -- 115554 -- -- --
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)
1.15 1.21 78.9 0.119 -- 5.3 1.7 --

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 1.15 55.0 -- -- -- 110889 4608 96.0 -- 0.143 0.143 0.152 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 1.15 1.18 -- 206 5530 0.149 0.158 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 8.46
Anisotropic B[1][1] 0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.29
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.33
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.007
r_mcbond_it 0.779
r_symmetry_vdw_refined 0.113
r_scangle_it 2.462
r_mcangle_it 1.278
r_angle_other_deg 0.787
r_chiral_restr 0.077
r_symmetry_vdw_other 0.282
r_dihedral_angle_1_deg 6.125
r_xyhbond_nbd_refined 0.119
r_symmetry_hbond_refined 0.171
r_nbd_other 0.238
r_nbd_refined 0.207
r_nbtor_other 0.084
r_angle_refined_deg 1.271
r_bond_other_d 0.002
r_gen_planes_refined 0.006
r_gen_planes_other 0.004
r_scbond_it 1.603
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2641
Nucleic Acid Atoms 0
Heterogen Atoms 39
Solvent Atoms 586

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
RIGID BODY REFINEMENT Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement
RIGID version: BODY REFINEMENT model building