X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Dialysis
pH 8
Temperature 287.0
Details ammonium sulfate, pH 8, DIALYSIS, temperature 287K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.99 α = 90
b = 78.71 β = 90
c = 139.33 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 103
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1999-08-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-1 0.98 SSRL BL9-1

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
1.67 50 98.4 0.066 0.055 -- -- 80202 79717 -- 10737.6 26.0

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 1.67 49.39 -- -- -- 75645 3997 100.0 -- 0.20885 0.20845 0.21638 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 1.67 1.713 5558 311 5558 0.254 0.265 0.11 --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.686
Anisotropic B[1][1] -1.32
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.28
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.04
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_other 0.214
r_nbd_refined 0.212
r_gen_planes_other 0.001
r_gen_planes_refined 0.003
r_chiral_restr 0.066
r_dihedral_angle_2_deg 14.76
r_dihedral_angle_1_deg 1.984
r_angle_other_deg 0.671
r_angle_refined_deg 1.05
r_bond_other_d 0.001
r_bond_refined_d 0.005
r_xyhbond_nbd_refined 0.131
r_xyhbond_nbd_other 0.104
r_symmetry_vdw_refined 0.261
r_symmetry_vdw_other 0.228
r_symmetry_hbond_refined 0.112
r_mcbond_it 0.502
r_mcangle_it 0.982
r_scbond_it 1.466
r_scangle_it 2.578
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4439
Nucleic Acid Atoms 0
Heterogen Atoms 45
Solvent Atoms 577

Software

Computing
Computing Package Purpose
MAR Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
CNS model building
SCALA data reduction
MAR data collection