X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 298.0
Details 25% PEG 3350, 0,2M AMMONIUM SULFATE, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.5 α = 90
b = 101.79 β = 90
c = 121.97 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 MARRESEARCH KB-MIRROR 2003-11-28
Diffraction Radiation
Monochromator Protocol
liq N2 cooled Si-111 double monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID13 0.9789 ESRF ID13

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
2.8 29.65 94.0 -- 0.0665 -- 7.1 19650 19650 0.0 0.0 --
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)
2.8 2.9 96.2 -- 0.3885 3.46 4.2 --

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 2.8 25.0 0.0 0.0 19304 19304 1066 94.56 0.21972 0.21972 0.21677 0.27508 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 2.8 2.872 -- 83 1436 0.265 0.369 -- 96.44
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 49.063
Anisotropic B[1][1] -1.67
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.65
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.31
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 5.601
r_angle_other_deg 0.732
r_chiral_restr 0.055
r_dihedral_angle_4_deg 16.89
r_scbond_it 0.353
r_symmetry_vdw_refined 0.091
r_nbtor_other 0.077
r_bond_refined_d 0.006
r_dihedral_angle_2_deg 32.97
r_gen_planes_other 0.001
r_angle_refined_deg 1.186
r_xyhbond_nbd_refined 0.14
r_mcbond_it 0.306
r_bond_other_d 0.001
r_dihedral_angle_3_deg 14.795
r_symmetry_vdw_other 0.139
r_symmetry_hbond_refined 0.098
r_metal_ion_refined 0.018
r_mcbond_other 0.027
r_mcangle_it 0.338
r_nbtor_refined 0.166
r_nbd_other 0.159
r_gen_planes_refined 0.002
r_nbd_refined 0.178
r_scangle_it 0.571
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6504
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 28

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing