X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5
Temperature 287.0
Details ammonium sulfate, sodium acetate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 287K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 63.39 α = 90
b = 79.15 β = 90
c = 141.8 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 103
2 103
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2001-12-07
CCD MARRESEARCH -- 2002-02-16
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 5ID-B 0.95 APS 5ID-B
SYNCHROTRON APS BEAMLINE 5ID-B 0.95 APS 5ID-B

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
1.9 35 95.5 0.069 0.061 -- 3.9 -- 53723 -- -- --

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 1.9 70.71 -- -- -- 52986 2846 97.89 -- 0.22595 0.22346 0.27257 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 1.9 1.949 -- 176 3253 0.28 0.317 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.266
Anisotropic B[1][1] -0.53
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.16
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.63
RMS Deviations
Key Refinement Restraint Deviation
r_bond_other_d 0.001
r_dihedral_angle_2_deg 17.637
r_scbond_it 1.956
r_xyhbond_nbd_refined 0.242
r_bond_refined_d 0.01
r_symmetry_hbond_refined 0.275
r_angle_refined_deg 1.321
r_dihedral_angle_1_deg 3.751
r_angle_other_deg 0.726
r_nbd_refined 0.279
r_xyhbond_nbd_other 0.305
r_symmetry_vdw_refined 0.275
r_mcangle_it 1.411
r_nbd_other 0.24
r_symmetry_vdw_other 0.235
r_chiral_restr 0.079
r_mcbond_it 0.751
r_scangle_it 3.329
r_gen_planes_refined 0.004
r_gen_planes_other 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4621
Nucleic Acid Atoms 126
Heterogen Atoms 46
Solvent Atoms 553

Software

Software
Software Name Purpose
MAR345 data collection
SCALA data scaling
CNS refinement
REFMAC refinement version: 5.0
CCP4 data scaling version: (SCALA)
CNS phasing